Results for job muscle-E20211205-205541-0288-3293331-p2m


SARS_CORONAVIRUS                      ctaccAAcAcaTgTATtttTAtatAaaccAAAAaCttgtCcAttAgCaCaCaATggaaaa
Severe_acute_respiratory_syndrom      ---ATtAaAgGTTTATACCTtCCCAGGtaAcAAaC----CAACCAACttTCGAT------
SARS_coronavirus_civet007             -------------------------------AAGC----CAACCAAC-CTCGAT------
SARS_coronavirus_GZ50                 ------------------CTACCCAGG--AAAAGC----CAACCAAC-CTCGAT------
SARS_coronavirus_Taiwan_TC1           ------------------------------------------------------------
Bat_coronavirus_(BtCoV/273/2005)      ---ATAttAgGTTTtTACCTACCCAGG--AAAAGC----CAACCAAC-CTCGAT------
BtRf-BetaCoV/HeB2013                  ------------------------------------------------------------

SARS_CORONAVIRUS                      ctaatgggtggtttatgtgatttaCaaTaaTAGcTCaTacctcCTAAgtaAAgTTgAgtc
Severe_acute_respiratory_syndrom      ------------------------CTCTTGTAGATC-TGTTCTCTAAACGAACTTTA---
SARS_coronavirus_civet007             ------------------------CTCTTGTAGATC-TGTTCTCTAAACGAACTTTA---
SARS_coronavirus_GZ50                 ------------------------CTCTTGTAGATC-TGTTCTCTAAACGAACTTTA---
SARS_coronavirus_Taiwan_TC1           --------------------------------------------------AACTTTA---
Bat_coronavirus_(BtCoV/273/2005)      ------------------------CTCTTGTAGATC-TGTTCTtTAAACGAACTTcA---
BtRf-BetaCoV/HeB2013                  ------------------------------------------------------------

SARS_CORONAVIRUS                      AcATCTGTGacatcacaaCctGGa-----GCaTtGcaaACaTACGgAtTAacAgacAagA
Severe_acute_respiratory_syndrom      AAATCTGTGTgGCTGTCaCTCGGCTGCATGCtTAGTGCACtcACGCAGTATAAttAATAA
SARS_coronavirus_civet007             AAATCTGTGTAGtTGTCGCTCGGCTGCATGCCTAGTGCACCTACGCAGTATAAACAATAA
SARS_coronavirus_GZ50                 AAATCTGTGTAGCTGTCGCTCGGCTGCATGCCTAGTGCACCTACGCAGTATAAACAATAA
SARS_coronavirus_Taiwan_TC1           AAATCTGTGTAGCTGTCGCTCGGCTGCATGCCTAGTGCACCTACGCAGTATAAACAATAA
Bat_coronavirus_(BtCoV/273/2005)      AAATCTGTGTgGCTGTCGCTtGGCTGtATGCCTAGTGCACCTACaCAGTATAAAtAATAA
BtRf-BetaCoV/HeB2013                  ------------------------------------------------------------

SARS_CORONAVIRUS                      CtAATTTatgTGatGTTGAtAtGAcAtGgtcGTAAC------agCaTtTaCAacaTaaga
Severe_acute_respiratory_syndrom      CtAATT--ACTGTCGTTGACAgGAcACGA--GTAACTCGTCtaTCTTCTGCAGgCTGCTT
SARS_coronavirus_civet007             tAAATTTTACTGTCGTTGACAAGAAACGA--GTAACTCGTCCCTCTTCTGCAGACTGCTT
SARS_coronavirus_GZ50                 tAAATTTTACTGTCGTTGACAAGAAACGA--GTAACTCGTCCCTCTTCTGCAGACTGCTT
SARS_coronavirus_Taiwan_TC1           tAAATTTTACTGTCGTTGACAAGAAACGA--GTAACTCGTCCCTCTTCTGCAGACTGCTT
Bat_coronavirus_(BtCoV/273/2005)      C----TTTACTGTCGTTGACAAGAAACGg--GTAACTCGTCCtTCTTCTGCAGACTGCTT
BtRf-BetaCoV/HeB2013                  ------------------------------------------------------------

SARS_CORONAVIRUS                      AtGGTcTaCGTatGca------------AgCAcCAcAtCTtaaTgaaGTCtGtGaaTtgC
Severe_acute_respiratory_syndrom      ACGGTTT-CGTCCGTGTTGCAGcCGATCATCAGCAcAtCTAGGTTTCGTCCGGGTGTGAC
SARS_coronavirus_civet007             ACGGTTT-CGTCCGTGTTGCAGTCGATCATCAGCATACCTAGGTTTCGTCCGGGTGTGAC
SARS_coronavirus_GZ50                 ACGGTTT-CGTCCGTGTTGCAGTCGATCATCAGCATACCTAGGTTTCGTCCGGGTGTGAC
SARS_coronavirus_Taiwan_TC1           ACGGTTT-CGTCCGTGTTGCAGTCGATCATCAGCATACCTAGGTTTCGTCCGGGTGTGAC
Bat_coronavirus_(BtCoV/273/2005)      ACGGTTT-CGTCCGTGTTGtAGTCGATCATCAGCATACCTAGGTTTCGTCCGGGTGTGAC
BtRf-BetaCoV/HeB2013                  ------------------------------------------------------------

SARS_CORONAVIRUS                      aaAgAacacaagccccaacagcctGTAAGActGtatgcggtgtgtacAtAGCCTcaTaaa
Severe_acute_respiratory_syndrom      CGAAAG------------------GTAAGATGG--------------AGAGCCTTGT---
SARS_coronavirus_civet007             CGAAAG------------------GTAAGATGG--------------AGAGCCTTGT---
SARS_coronavirus_GZ50                 CGAAAG------------------GTAAGATGG--------------AGAGCCTTGT---
SARS_coronavirus_Taiwan_TC1           CGAAAG------------------GTAAGATGG--------------AGAGCCTTGT---
Bat_coronavirus_(BtCoV/273/2005)      CGAAAG------------------GTAAGATGG--------------AGAGCCTTGT---
BtRf-BetaCoV/HeB2013                  ----AG------------------GTAAGATGG--------------AGAGCCTTGT---

SARS_CORONAVIRUS                      actcaggttcccaatacCTTGaaGTGTtAtcattagtaagcAtaAcAgAAtACAtGTCtA
Severe_acute_respiratory_syndrom      ----------------cCcTG--GTtTCA------------ACGAGAAAACACACGTCCA
SARS_coronavirus_civet007             ----------------TCTTG--GTGTCA------------ACGAGAAAACACACGTCCA
SARS_coronavirus_GZ50                 ----------------TCTTG--GTGTCA------------ACGAGAAAACACACGTCCA
SARS_coronavirus_Taiwan_TC1           ----------------TCTTG--GTGTCA------------ACGAGAAAACACACGTCCA
Bat_coronavirus_(BtCoV/273/2005)      ----------------TCTTG--GTGTCA------------ACGAGAAAACACACGTCCA
BtRf-BetaCoV/HeB2013                  ----------------TCTTG--GTGTCA------------ACGAGAAAACACACGTCCA

SARS_CORONAVIRUS                      ACatgtgtcCtGTTaaCtcaTCaTgtAGcTTtcttatgtattgtaagtacaaatgAaAGA
Severe_acute_respiratory_syndrom      AC------TCAGTTTGCCTGTttTaCAGGTT------------------------cGcGA
SARS_coronavirus_civet007             AC------TCAGTTTGCCTGTCCTTCAGGTT------------------------AGAGA
SARS_coronavirus_GZ50                 AC------TCAGTTTGCCTGTCCTTCAGGTT------------------------AGAGA
SARS_coronavirus_Taiwan_TC1           AC------TCAGTTTGCCTGTCCTTCAGGTT------------------------AGAGA
Bat_coronavirus_(BtCoV/273/2005)      AC------TCAGTTTaCCTGTtCTTCAGGTT------------------------AGtGA
BtRf-BetaCoV/HeB2013                  AC------TCAGTTTaCCTGTtCTTCAGGTT------------------------AGtGA

SARS_CORONAVIRUS                      CaTcagcatactcctgattaggatgttTAGTaaGTGGgT---aaGcaTCTaTaGctaAaG
Severe_acute_respiratory_syndrom      CGT----------------------GCTcGTaCGTGGCTTtGGaGACTCcGTGGAgGAGG
SARS_coronavirus_civet007             CGT----------------------GCTAGTGCGTGGCTTCGGGGACTCTGTGGAAGAGG
SARS_coronavirus_GZ50                 CGT----------------------GCTAGTGCGTGGCTTCGGGGACTCTGTGGAAGAGG
SARS_coronavirus_Taiwan_TC1           CGT----------------------GCTAGTGCGTGGCTTCGGGGACTCTGTGGAAGAGG
Bat_coronavirus_(BtCoV/273/2005)      CGT----------------------GtTAGTGCGTGGtTTCGGGGAtaCTGTGGAAGAaG
BtRf-BetaCoV/HeB2013                  CGT----------------------GtTAGTGCGTGGtTTCGGGGAtaCTGTGGAAGAaG

SARS_CORONAVIRUS                      aCacgaaccgttCaATCatAaGtgtaccatctgtttttACGatAtCATCTacAAAAcagc
Severe_acute_respiratory_syndrom      tC----------tTATCaGAGG---------------CACGTcAACATCTtAAAgA----
SARS_coronavirus_civet007             CC----------CTATCGGAGG---------------CACGTGAACAcCTCAAAAA----
SARS_coronavirus_GZ50                 CC----------CTATCGGAGG---------------CACGTGAACAcCTCAAAAA----
SARS_coronavirus_Taiwan_TC1           CC----------CTATCGGAGG---------------CACGTGAACAcCTCAAAAA----
Bat_coronavirus_(BtCoV/273/2005)      CC----------CTAgCGGAaG---------------CACGTGAACATCTtAAAAA----
BtRf-BetaCoV/HeB2013                  CC----------CTAgCGGAaG---------------CACGTGAACATCTtAAAAA----

SARS_CORONAVIRUS                      cGGCcCcTagGaTtctTgaTgGAtCTGGgtaAggAAGGtacACataatcaTcaCCCtGtT
Severe_acute_respiratory_syndrom      TGGCACTTGTGGc--tTAGTAGAagTtG---AAAAAGGCGTtt-------TGCCtCAaCT
SARS_coronavirus_civet007             TGGCACTTGTGGT--CTAGTAGAGCTGG---AAAAAGGCGTAC-------TGCCCCAGCT
SARS_coronavirus_GZ50                 TGGCACTTGTGGT--CTAGTAGAGCTGG---AAAAAGGCGTAC-------TGCCCCAGCT
SARS_coronavirus_Taiwan_TC1           TGGCACTTGTGGT--CTAGTAGAGCTGG---AAAAAGGCGTAC-------TGCCCCAGCT
Bat_coronavirus_(BtCoV/273/2005)      TGGCACTTGTGGc--CTAGTAGAGCTGG---AAAAAGGtGTtt-------TaCgCCAGCT
BtRf-BetaCoV/HeB2013                  TGGCACTTGTGGc--CTAGTAGAGCTGG---AAAAAGGtGTtt-------TaCgCCAGCT

SARS_CORONAVIRUS                      TaActAGCatTgTaTGTTgAgagcaaaattcatgaggtcctttagtaaggtcagtctcag
Severe_acute_respiratory_syndrom      TGAACAGCCCTATGTGTTCA----------------------------------------
SARS_coronavirus_civet007             TGAACAGCCCTATGTGTTCA----------------------------------------
SARS_coronavirus_GZ50                 TGAACAGCCCTATGTGTTCA----------------------------------------
SARS_coronavirus_Taiwan_TC1           TGAACAGCCCTATGTGTTCA----------------------------------------
Bat_coronavirus_(BtCoV/273/2005)      TGAAgAGCCCTATGTGTTCA----------------------------------------
BtRf-BetaCoV/HeB2013                  TGAAgAGCCCTATGTGTTCA----------------------------------------

SARS_CORONAVIRUS                      TccAACaTTtTGcttcagacataaaaacatTGttTTgAtaAtaAAgaACtGaCtTAAaGT
Severe_acute_respiratory_syndrom      TcAAACGTTCgGA-----------------TGCtcgAActgCaccTCAtGGtCATgttaT
SARS_coronavirus_civet007             TTAAACGTTCTGA-----------------TGCCTTAAGCACCAATCACGGCCAcAAGGT
SARS_coronavirus_GZ50                 TTAAACGTTCTGA-----------------TGCCTTAAGCACCAATCACGGCCAcAAGGT
SARS_coronavirus_Taiwan_TC1           TTAAACGTTCTGA-----------------TGCCTTAAGCACCAATCACGGCCAcAAGGT
Bat_coronavirus_(BtCoV/273/2005)      TTAAACGaTCTGA-----------------aGCCTTAAGCACCAcTCAtGGCCATAAGGT
BtRf-BetaCoV/HeB2013                  TTAAACGaTCTGA-----------------aGCCTTAAGCACCAcTCAtGGCCATAAGGT

SARS_CORONAVIRUS                      tcTTtAtGCTaGccaCtagAccttgagatgcATaagtGctATTgaaacacacaaCAGcAt
Severe_acute_respiratory_syndrom      gGTTGA-GCTGGTaGCAGAA-----------cTcGAaGGCATT-----------CAGTAC
SARS_coronavirus_civet007             CGTTGA-GCTGGTtGCAGAA-----------ATGGACGGCATT-----------CAGTAC
SARS_coronavirus_GZ50                 CGTTGA-GCTGGTtGCAGAA-----------ATGGACGGCATT-----------CAGTAC
SARS_coronavirus_Taiwan_TC1           CGTTGA-GCTGGTtGCAGAA-----------ATGGACGGCATT-----------CAGTAC
Bat_coronavirus_(BtCoV/273/2005)      tGTTGA-atTGGTgGCtGAA-----------ATGaAtGGCATT-----------CAGTtC
BtRf-BetaCoV/HeB2013                  tGTTGA-atTGGTgGCtGAA-----------ATGaAtGGCATT-----------CAGTtC

SARS_CORONAVIRUS                      cGTCagAGaGtatCAtCAtTGaGAaatgTttacgCAaATaTGcGtaAAACtcattcaCaA
Severe_acute_respiratory_syndrom      GGTCGTAGtGGTgagACACTtGGtGTcCTtGTcCCtCATGTGGGCGAAAta------CCA
SARS_coronavirus_civet007             GGTCGTAGCGGTAtAACACTGGGAGTACTCGTGCCACATGTGGGCGAAACC------CCA
SARS_coronavirus_GZ50                 GGTCGTAGCGGTAtAACACTGGGAGTACTCGTGCCACATGTGGGCGAAACC------CCA
SARS_coronavirus_Taiwan_TC1           GGTCGTAGCGGTAtAACACTGGGAGTACTCGTGCCACATGTGGGCGAAACC------CCA
Bat_coronavirus_(BtCoV/273/2005)      GGTCGTAGCGGTACAACACTGGGAGTtCTCGTGCCACATGTGGGCGAAACC------CCA
BtRf-BetaCoV/HeB2013                  GGTCGTAGCGGTACAACACTGGGAGTtCTCGTGCCACATGTGGGCGAAACC------CCA

SARS_CORONAVIRUS                      AgTctgTgtCaacATcTctaTtTctaTAgagACacTcATAAaGtctGtGtTGtaaattGc
Severe_acute_respiratory_syndrom      gTgGCtTACCGCAAgGTTCTTCTTCGTAAGAACGGTAATAAaG---GAGCTG------GT
SARS_coronavirus_civet007             ATTGCATACCGCAATGTTCTTCTTCGTAAGAACGGTAATAAGG---GAGCcG------GT
SARS_coronavirus_GZ50                 ATTGCATACCGCAATGTTCTTCTTCGTAAGAACGGTAATAAGG---GAGCcG------GT
SARS_coronavirus_Taiwan_TC1           ATTGCATACCGCAATGTTCTTCTTCGTAAGAACGGTAATAAGG---GAGCcG------GT
Bat_coronavirus_(BtCoV/273/2005)      ATTGCgTACCGCAATGTTCTTCTTCGcAAGAACGGTAATAAGG---GAGCTG------GT
BtRf-BetaCoV/HeB2013                  ATTGCgTACCGCAATGTTCTTCTTCGcAAGAACGGTAATAAGG---GAGCTG------GT

SARS_CORONAVIRUS                      GGaCATActTATcGgcaattttgttacCATCagTagataAAAGTgcatTaACaTtGgccG
Severe_acute_respiratory_syndrom      GGcCATAGtTAcGG-------------CgcCGAT---CTAAAGTCaTtTGACTTAG---G
SARS_coronavirus_civet007             GGTCATAGCTATGG-------------CATCGAT---CTAAAGTCTTATGACTTAG---G
SARS_coronavirus_GZ50                 GGTCATAGCTATGG-------------CATCGAT---CTAAAGTCTTATGACTTAG---G
SARS_coronavirus_Taiwan_TC1           GGTCATAGCTATGG-------------CATCGAT---CTAAAGTCTTATGACTTAG---G
Bat_coronavirus_(BtCoV/273/2005)      GGTCATAGCTAcGG-------------CATCGAT---CTAAAGTCTTATGACTTAG---G
BtRf-BetaCoV/HeB2013                  GGTCATAGCTAcGG-------------CATCGAT---CTAAAGTCTTATGACTTAG---G

SARS_CORONAVIRUS                      TGAC-AGCTTGacaaatgttaaaaaCACTatTagCATaagcagTTgTGgcatctcctgat
Severe_acute_respiratory_syndrom      cGACGAGCTTG-------------GCACTGATCCttaTGAAGATTtTc------------
SARS_coronavirus_civet007             TGACGAGCTTG-------------GCACTGATCCCATTGAAGATTATG------------
SARS_coronavirus_GZ50                 TGACGAGCTTG-------------GCACTGATCCCATTGAAGATTATG------------
SARS_coronavirus_Taiwan_TC1           TGACGAGCTTG-------------GCACTGATCCCATTGAAGATTATG------------
Bat_coronavirus_(BtCoV/273/2005)      TGACGAGCTTa-------------aCACTGATCCCATTGAAGATTATG------------
BtRf-BetaCoV/HeB2013                  TGACGAGCTTa-------------aCACTGATCCCATTGAAGATTATG------------

SARS_CORONAVIRUS                      gaggttccacctggtttAACAtAtAgTGaAcCgCcAcaCATGaCcaT--TtCACTCaata
Severe_acute_respiratory_syndrom      -----------------AAgA-AAACTGGAACACTAAaCATaGCAGTGGTGttacC----
SARS_coronavirus_civet007             -----------------AACA-AAACTGGAACACTAAGCATGGCAGTGGTGCACTC----
SARS_coronavirus_GZ50                 -----------------AACA-AAACTGGAACACTAAGCATGGCAGTGGTGCACTC----
SARS_coronavirus_Taiwan_TC1           -----------------AACA-AAACTGGAACACTAAGCATGGCAGTGGTGCACTC----
Bat_coronavirus_(BtCoV/273/2005)      -----------------AACA-AAAaTGGAACACTAAGCATGGCAGgGGTGCtCTC----
BtRf-BetaCoV/HeB2013                  -----------------AACA-AAAaTGGAACACTAAGCATGGCAGgGGTGCtCTC----

SARS_CORONAVIRUS                      CtTGAgCaCACTCaTtAGCTaAtctATaGAaacGgtGTgACaaGCTAcaacacgttgtat
Severe_acute_respiratory_syndrom      CGTGAACTCAtgCGTGAGCTtA---AcGGAGGgGCAtaCACTCGCTA-------------
SARS_coronavirus_civet007             CGTGAACTCACTCGTGAGCTCA---ATGGAGGTGCAGTCACTCGCTA-------------
SARS_coronavirus_GZ50                 CGTGAACTCACTCGTGAGCTCA---ATGGAGGTGCAGTCACTCGCTA-------------
SARS_coronavirus_Taiwan_TC1           CGTGAACTCACTCGTGAGCTCA---ATGGAGGTGCAGTCACTCGCTA-------------
Bat_coronavirus_(BtCoV/273/2005)      CGTGAACTCAtTCGTGAGCTtA---ATGGAGGTGCAGTCACTCGCTA-------------
BtRf-BetaCoV/HeB2013                  CGTGAACTCAtTCGTGAGCTtA---ATGGAGGTGCAGTCACTCGCTA-------------

SARS_CORONAVIRUS                      gttTGcgagCAAgAACaagTGaGGCCaTaAttcTaaGcAtgtTaggcatggCTctATcaC
Severe_acute_respiratory_syndrom      ---TGTCGAtAACAACTTCTGTGGCCCTGA---TGGcTACCCT--------CTTGAgTGC
SARS_coronavirus_civet007             ---TGTCGACAACAAtTTCTGTGGCCCaGA---TGGGTACCCT--------CTTGATTGC
SARS_coronavirus_GZ50                 ---TGTCGACAACAAtTTCTGTGGCCCaGA---TGGGTACCCT--------CTTGATTGC
SARS_coronavirus_Taiwan_TC1           ---TGTCGACAACAAtTTCTGTGGCCCaGA---TGGGTACCCT--------CTTGATTGC
Bat_coronavirus_(BtCoV/273/2005)      ---TGTtGAtAACAACTTCTGTGGCCCTGA---TGGGTAtCCT--------CTTGAcTGC
BtRf-BetaCoV/HeB2013                  ---TGTtGAtAACAACTTCTGTGGCCCTGA---TGGGTAtCCT--------CTTGAcTGC

SARS_CORONAVIRUS                      ATTtAgGATaaTCcCaacCcataagGTGaGGGttttcTAcaTCAcTaTaaACagTTTtta
Severe_acute_respiratory_syndrom      ATTAAAGAcCTTCTaGCAC------GTGCtGG-----TAAagCttcaTGCACTtTgT---
SARS_coronavirus_civet007             ATcAAAGATtTTCTCGCAC------GcGCGGG-----cAAGTCAATGTGCACTCTTT---
SARS_coronavirus_GZ50                 ATcAAAGATtTTCTCGCAC------GcGCGGG-----cAAGTCAATGTGCACTCTTT---
SARS_coronavirus_Taiwan_TC1           ATcAAAGATtTTCTCGCAC------GcGCGGG-----cAAGTCAATGTGCACTCTTT---
Bat_coronavirus_(BtCoV/273/2005)      ATTAAAGATCTTCTCGCtC------GTGCGGG-----TAAGTCgATGTGCACTCTTT---
BtRf-BetaCoV/HeB2013                  ATTAAAGATCTTCTCGCtC------GTGCGGG-----TAAGTtgATGTGCACTCTTT---

SARS_CORONAVIRUS                      acatgttgtgccaaccaCCatAgAAtTTGcttgttccaattAcTACAgTagcTCctctAG
Severe_acute_respiratory_syndrom      -----------------CCGAACAACTgG------------AcTttATTGAcaCtAAGAG
SARS_coronavirus_civet007             -----------------CCGAACAACTTG------------ATTACATcGAGTCGAAGAG
SARS_coronavirus_GZ50                 -----------------CCGAACAACTTG------------ATTACATcGAGTCGAAGAG
SARS_coronavirus_Taiwan_TC1           -----------------CCGAACAACTTG------------ATTACATcGAGTCGAAGAG
Bat_coronavirus_(BtCoV/273/2005)      -----------------CCGAACAACTTG------------ATTtCATTGAaTCGAAGcG
BtRf-BetaCoV/HeB2013                  -----------------CCGAACAACTTG------------ATTtCATTGAaTCGAAGcG

SARS_CORONAVIRUS                      tGGcGgCTAtTGaTttCaatAAttTttG-ATGAAAcTGtCTatTggtCatAGtaCT----
Severe_acute_respiratory_syndrom      gGGTGTaTACTGCTGCCGTGAACATGAGCATGAAATTGCtTGGTACACgGAaCGtTCTGA
SARS_coronavirus_civet007             AGGTGTCTACTGCTGCCGTGAcCATGAGCATGAAATTGCCTGGTtCACTGAGCGCTCTGA
SARS_coronavirus_GZ50                 AGGTGTCTACTGCTGCCGTGAcCATGAGCATGAAATTGCCTGGTtCACTGAGCGCTCTGA
SARS_coronavirus_Taiwan_TC1           AGGTGTCTACTGCTGCCGTGAcCATGAGCATGAAATTGCCTGGTtCACTGAGCGCTCTGA
Bat_coronavirus_(BtCoV/273/2005)      cGGTGTCTAtTGCTGCCGTGAACATGAGCATGAAATTGCtTGGTACACTGAGCGCTCaGA
BtRf-BetaCoV/HeB2013                  tGGTGTCTAtTGCTGCCGTGAACATGAGCATGAAATTGCtTGGTACACTGAGCGCTCaGA

SARS_CORONAVIRUS                      --AcAGaTAgagaCACCAGctACggTgCGAgctctattctttgcAcTAAtgGcatacttA
Severe_acute_respiratory_syndrom      aAAGAGCTAtGAattgCAGACACCtTTtGAA-------------ATTAAattgG---CaA
SARS_coronavirus_civet007             TAAGAGCTACGAGCACCAGACACCCTTCGAA-------------ATTAAGAGTG---CCA
SARS_coronavirus_GZ50                 TAAGAGCTACGAGCACCAGACACCCTTCGAA-------------ATTAAGAGTG---CCA
SARS_coronavirus_Taiwan_TC1           TAAGAGCTACGAGCACCAGACACCCTTCGAA-------------ATTAAGAGTG---CCA
Bat_coronavirus_(BtCoV/273/2005)      cAAGAGtTAtGAGCACCAGACACCaTTCGAg-------------gTTAAGAGTG---CCA
BtRf-BetaCoV/HeB2013                  cAAGAGtTAtGAGCACCAGACACCaTTCGAg-------------ATTAAGAGTG---CCA

SARS_CORONAVIRUS                      AGAttcATTTG--AgTTatAgtaGGGAtgacattacgttttgtatATGCgaAAAGTgcaT
Severe_acute_respiratory_syndrom      AGA--AATTTGACACcTTCAAtGGGGA------------------ATGtCCAAAtTTTGT
SARS_coronavirus_civet007             AGA--AATTTGACACTTTCAAAGGGGA------------------ATGCCCAAAGTTTGT
SARS_coronavirus_GZ50                 AGA--AATTTGACACTTTCAAAGGGGA------------------ATGCCCAAAGTTTGT
SARS_coronavirus_Taiwan_TC1           AGA--AATTTGACACTTTCAAAGGGGA------------------ATGCCCAAAGTTTGT
Bat_coronavirus_(BtCoV/273/2005)      AGA--AATTTGACACTTTtAAAGGGGA------------------ATGCCCgAAGTTcGT
BtRf-BetaCoV/HeB2013                  AGA--AATTTGACACTTTtAAAGGGGA------------------ATGCCCgAAGTTcGT

SARS_CORONAVIRUS                      cTTgaTCCTCaTAACTCAttgaatcataatAAAGTCtAg--CcTTaccCCAttTaTTaAA
Severe_acute_respiratory_syndrom      ATT--TCCctTaAAtTCc------------AtAaTCAAgactATTCAACCAaGgGTTGAA
SARS_coronavirus_civet007             gTT--TCCTCTTAACTCA------------AAAGTCAAAGTCATTCAACCACGTGTTGAA
SARS_coronavirus_GZ50                 gTT--TCCTCTTAACTCA------------AAAGTCAAAGTCATTCAACCACGTGTTGAA
SARS_coronavirus_Taiwan_TC1           gTT--TCCTCTTAACTCA------------AAAGTCAAAGTCATTCAACCACGTGTTGAA
Bat_coronavirus_(BtCoV/273/2005)      ATT--TCCTCTcAACTCt------------AAAGTCAAAGTCATTCAACCACGTGTTGAA
BtRf-BetaCoV/HeB2013                  ATT--TCCTCTcAACTCt------------AAAGTCAAAGTCATTCAACCACGTGTTGAA

SARS_CORONAVIRUS                      tgGAAAAccAgCTGAt--TTgtcTaGGttGTtgACGaT-----gACttgGTTaGCATtaa
Severe_acute_respiratory_syndrom      AAGAAAAAGc-tTGAtGGcTTtATGGGtaGaATtCGaTCTGTcTAtCCAGTT-GCgTCaC
SARS_coronavirus_civet007             AAGAAAAAGA-CTGAGGGTTTCATGGGGCGTATACGCTCTGTGTACCCtGTT-GCATCTC
SARS_coronavirus_GZ50                 AAGAAAAAGA-CTGAGGGTTTCATGGGGCGTATACGCTCTGTGTACCCtGTT-GCATCTC
SARS_coronavirus_Taiwan_TC1           AAGAAAAAGA-CTGAGGGTTTCATGGGGCGTATACGCTCTGTGTACCCtGTT-GCATCTC
Bat_coronavirus_(BtCoV/273/2005)      AAGAAAAAGA-CTGAaGGTTTCATGGGGCGTATACGCTCTGTGTACCaAGTT-GCcaCTC
BtRf-BetaCoV/HeB2013                  AAGAAAAAGA-CTGAaGGTTTCATGGGGCGTATACGCTCTGTGTACCaAGTT-GCcaCTC

SARS_CORONAVIRUS                      tACAGccaccAtcGTAACAAtcaAaGtACTTaTcaaCaACtTcaActAcAaaTAgTagTT
Severe_acute_respiratory_syndrom      CAaAt----GAATGcAACcAa--ATGtgCcTtT---CaACtcTcATGAAgTGTgATCATT
SARS_coronavirus_civet007             CACAG----GAgTGTAACAAC--ATGCACTTGT---CTACCTTgATGAAATGTAATCATT
SARS_coronavirus_GZ50                 CACAG----GAgTGTAACAAt--ATGCACTTGT---CTACCTTgATGAAATGTAATCATT
SARS_coronavirus_Taiwan_TC1           CACAG----GAgTGTAACAAt--ATGCACTTGT---CTACCTTgATGAAATGTAATCATT
Bat_coronavirus_(BtCoV/273/2005)      CAaAt----GAATGcAACgAC--ATGCACTTGT---CTgtCTTtATGAAgTGcAATCATT
BtRf-BetaCoV/HeB2013                  CAaAt----GAATGcAACgAC--ATGCACTTaT---CTgtCTTtATGAAgTGcAATCATT

SARS_CORONAVIRUS                      GtctgatatcacacattgttGgTagAtTaTaAcGatAGtaGTcatAaTcgCTGAtAGCag
Severe_acute_respiratory_syndrom      G------------------tGgTGAAacTTCATGGCAGACGgGCGAtTTTgTtAAAGCCA
SARS_coronavirus_civet007             G------------------CGATGAAGTTTCATGGCAaACGTGCGACTTTCTGAAAGCCA
SARS_coronavirus_GZ50                 G------------------CGATGAAGTTTCATGGCAGACGTGCGACTTTCTGAAAGCCA
SARS_coronavirus_Taiwan_TC1           G------------------CGATGAAGTTTCATGGCAGACGTGCGACTTTCTGAAAGCCA
Bat_coronavirus_(BtCoV/273/2005)      G------------------tGATGAAGcTTCtTGGCAGACGTGtGAtTTTCTcAAAGCCA
BtRf-BetaCoV/HeB2013                  G------------------CGATGAAGcTTCtTGGCAGACGTGtGAtTTTCTcAAAGCCA

SARS_CORONAVIRUS                      C--aTtAcCATccTGaGCAaaGAAgAagtgtTTTAaTT-caacAGaACtTcCTtCcTtaa
Severe_acute_respiratory_syndrom      CTTGcGAAttTTGTG-GCACTGAgAA-----TTTgacTAaaGAAGGtgCcACTACtTGTG
SARS_coronavirus_civet007             CTTGTGAACATTGTG-GCACTGAAAA-----TTTAGTTAtTGAAGGACCTACTACATGTG
SARS_coronavirus_GZ50                 CTTGTGAACATTGTG-GCACTGAAAA-----TTTAGTTAtTGAAGGACCTACTACATGTG
SARS_coronavirus_Taiwan_TC1           CTTGTGAACATTGTG-GCACTGAAAA-----TTTAGTTAtTGAAGGACCTACTACATGTG
Bat_coronavirus_(BtCoV/273/2005)      CTTGTGAAtATTGTG-GCACTGAAAA-----TccAGTgAgTGgAGGACCTACTACATGTG
BtRf-BetaCoV/HeB2013                  CTTGTGAAtATTGTG-GCACTGAAAA-----TccAGTTAgTGAAGGACCTACTACATGTG

SARS_CORONAVIRUS                      aGaAaCccttagACacAgcAAaGtcaTAGaagtctttgtTAAAAtTaCCggGTtTgaCaG
Severe_acute_respiratory_syndrom      GtTACtT-----ACCccaaAATGCTGTtG----------TtAAAATttatTGT---CCaG
SARS_coronavirus_civet007             GGTACCT-----ACCTACTAATGCTGTAG----------TgAAAATGCCATGT---CCTG
SARS_coronavirus_GZ50                 GGTACCT-----ACCTACTAATGCTGTAG----------TgAAAATGCCATGT---CCTG
SARS_coronavirus_Taiwan_TC1           GGTACCT-----ACCTACTAATGCTGTAG----------TgAAAATGCCATGT---CCTG
Bat_coronavirus_(BtCoV/273/2005)      GGTACCT-----ACCTACTAATGCTGTAG----------TAAAgATGCCcTcTgTcCCTG
BtRf-BetaCoV/HeB2013                  GGTACCT-----ACCTACTAATGCTGTAG----------TAAAgATGCCcTGT---CCcG

SARS_CORONAVIRUS                      ttTGaaAAGcaACAttGtTaGtAagTGcagctactgaaaAGCAcgTAGTgcgtttatcta
Severe_acute_respiratory_syndrom      CaTGTCAcaAttCAGAagTaGGACCTG------------AGCA--TAGT-----------
SARS_coronavirus_civet007             CCTGTCAAGACcCAGAGATTGGACCTG------------AGCA--TAGT-----------
SARS_coronavirus_GZ50                 CCTGTCAAGACcCAGAGATTGGACCTG------------AGCA--TAGT-----------
SARS_coronavirus_Taiwan_TC1           CCTGTCAAGACcCAGAGATTGGACCTG------------AGCA--TAGT-----------
Bat_coronavirus_(BtCoV/273/2005)      CtTGTCAgaAtAaAGAagTgGGACCTG------------AGCA--TAGT-----------
BtRf-BetaCoV/HeB2013                  CtTGTCAgaAtAaAGAagTgGGACCTG------------AGCA--TAGT-----------

SARS_CORONAVIRUS                      GTaatAGATTACCAgAAgCAgcgtgcatagcagggTCAgcAgCATacAcAagtaAtTCCt
Severe_acute_respiratory_syndrom      cTTGCcGAaTACCAtAAtgA--------------aTCt--ggCtTgaAAACcattCTtCG
SARS_coronavirus_civet007             GTTGCAGATTAtCACAACCA--------------CTCA--AACATTGAAACTCGACTCCG
SARS_coronavirus_GZ50                 GTTGCAGATTAtCACAACCA--------------CTCA--AACATTGAAACTCGACTCCG
SARS_coronavirus_Taiwan_TC1           GTTGCAGATTAtCACAACCA--------------CTCA--AACATTGAAACTCGACTCCG
Bat_coronavirus_(BtCoV/273/2005)      GTTGCAGAcTACCACAAtCA--------------CTCA--AACATTGAAACTCGACTCCG
BtRf-BetaCoV/HeB2013                  GTTGCgGAcTACCACAACCA--------------CTCA--AACATTGAAACTCGACTCCG

SARS_CORONAVIRUS                      tAA---AacTAaGtCTAGA----------GCTaTGTaagTTtacATccTGatTatgTAcA
Severe_acute_respiratory_syndrom      tAAGGGtGGTcGcACTAttgccTTTGGAGGCTGTGTGTTcTCtTATGTTGGtTGC-cATA
SARS_coronavirus_civet007             CAAGGGAGGTAGGACTAGATGTTTTGGAGGCTGTGTGTTTgCCTATGTTGGCTGC-TATA
SARS_coronavirus_GZ50                 CAAGGGAGGTAGGACTAGATGTTTTGGAGGCTGTGTGTTTgCCTATGTTGGCTGC-TATA
SARS_coronavirus_Taiwan_TC1           CAAGGGAGGTAGGACTAGATGTTTTGGAGGCTGTGTGTTTgCCTATGTTGGCTGC-TATA
Bat_coronavirus_(BtCoV/273/2005)      CAAGGGAGGTAGGACTAaATGTTTTGGAGGCTGTGTGTTTTCCTATGTTGGCTGC-TATA
BtRf-BetaCoV/HeB2013                  CAAGGGAGGTAGGACTAaATGTTTTGGAGGCTGTGTGTTTTCCTATGTTGGCTGC-TATA

SARS_CORONAVIRUS                      ACAcctAGCtctCtgAagtGGTatCcaGTtgaaaCTAcaaaTGgaAcAccaTCAAcaaAT
Severe_acute_respiratory_syndrom      ACA---AGtGTGCCTAtTGGGTTCCaCGT----GCTAGcGCTaAcATAGGtTgtAACCAT
SARS_coronavirus_civet007             AtA---AGCGTGCCTACTGGGTTCCTCGT----GCTAGTGCTGATATtGGCTCAggCCAT
SARS_coronavirus_GZ50                 AtA---AGCGTGCCTACTGGGTTCCTCGT----GCTAGTGCTGATATtGGCTCAggCCAT
SARS_coronavirus_Taiwan_TC1           AtA---AGCGTGCCTACTGGGTTCCTCGT----GCTAGTGCTGATATtGGCTCAggCCAT
Bat_coronavirus_(BtCoV/273/2005)      ACA---AGCGTGCtTACTGGGTTCCTCGT----GCTAGTGCcGATATAGGtTCAAACCAT
BtRf-BetaCoV/HeB2013                  ACA---AGCGTGCtTACTGGGTTCCTCGT----GCTAGTGCcGATATAGGtTCAAACCAT

SARS_CORONAVIRUS                      AtTtttcTcACTaGTG-----GTccAAAaCTTGtAaGtGGgaacaCTgtAGAgAaTaAAa
Severe_acute_respiratory_syndrom      ACaGGtgTTgtTGGaGAaggTtccGAAggtcTtAATGAcaACCTtCTTGAaATACTccAa
SARS_coronavirus_civet007             ACTGGCATTACTGGTGACAATGTGGAgACCTTGAATGAGGAtCTCCTTGAGATACTGAgT
SARS_coronavirus_GZ50                 ACTGGCATTACTGGTGACAATGTGGAgACCTTGAATGAGGAtCTCCTTGAGATACTGAgT
SARS_coronavirus_Taiwan_TC1           ACTGGCATTACTGGTGACAATGTGGAgACCTTGAATGAGGAtCTCCTTGAGATACTGAgT
Bat_coronavirus_(BtCoV/273/2005)      ACTGGCATTACTGGTGACAATGTaGAAgttcTtAATGAaGACCTCCTTGAGATACTGAAT
BtRf-BetaCoV/HeB2013                  ACTGGCATatCTGGTGACAATGTaGAAgttcTtAATGAaGACCTCCTTGAGATACTGAAT

SARS_CORONAVIRUS                      CaTtAAaGTttgcacaatgcagaatgcatctgtcatccaaacaGTTAACA-cAAttTgGg
Severe_acute_respiratory_syndrom      aaaGAgaaa----------------------------------GTcAACATcAAtATTGT
SARS_coronavirus_civet007             CGTGAACGT----------------------------------GTTAACATTAACATTGT
SARS_coronavirus_GZ50                 CGTGAACGT----------------------------------GTTAACATTAACATTGT
SARS_coronavirus_Taiwan_TC1           CGTGAACGT----------------------------------GTTAACATTAACATTGT
Bat_coronavirus_(BtCoV/273/2005)      CGTGAACGT----------------------------------GTTAAtATTAACATTGT
BtRf-BetaCoV/HeB2013                  CGTGAACGT----------------------------------GTTAAtATTAACATTGT

SARS_CORONAVIRUS                      TGGtatgTcTgATcccAATatttaAaATaaCggTCAaagagTTTTaaCcTCTcTTcCgtg
Severe_acute_respiratory_syndrom      TGGtGAcTTTaAacTtAATG-AAGAGATcGCCATtA-----TTTTGGCATCTTTTTC---
SARS_coronavirus_civet007             TGGCGATTTTCATTTGAATG-AAGAGgTTGCCATCA-----TTTTGGCATCTTTcTC---
SARS_coronavirus_GZ50                 TGGCGATTTTCATTTGAATG-AAGAGgTTGCCATCA-----TTTTGGCATCTTTcTC---
SARS_coronavirus_Taiwan_TC1           TGGCGATTTTCATTTGAATG-AAGAGgTTGCCATCA-----TTTTGGCATCTTTcTC---
Bat_coronavirus_(BtCoV/273/2005)      TGGCGATTTTCAgTTGAATG-AAGAGATTGCCATCA-----TTTTaGCgTCTcTTTC---
BtRf-BetaCoV/HeB2013                  TGGCGATTTTCAgTTGAATG-AAGAGATTGCCATCA-----TTTTaGCgTCTcTTTC---

SARS_CORONAVIRUS                      aagtcaTatTTtaACAAaTcccacttaatgtaaGgCTTTGTtaagtcagtgtcaacatgT
Severe_acute_respiratory_syndrom      ------TGCTTCcACAAGT--------------GCtTTTGT------------------g
SARS_coronavirus_civet007             ------TGCTTCTACAAGT--------------GCCTTTaT------------------T
SARS_coronavirus_GZ50                 ------TGCTTCTACAAGT--------------GCCTTTaT------------------T
SARS_coronavirus_Taiwan_TC1           ------TGCTTCTACAAGT--------------GCCTTTaT------------------T
Bat_coronavirus_(BtCoV/273/2005)      ------TGCTTCTACgAGT--------------GCtTTTGT------------------T
BtRf-BetaCoV/HeB2013                  ------TGCTTCTACgAGT--------------GCtTTTGT------------------T

SARS_CORONAVIRUS                      GACtCTGcAgttAaAGcCcTGgTcAaggttaatatAGgCaTTaAcAAtgAaTaaTaAGaa
Severe_acute_respiratory_syndrom      GAaACTGTgA--AagGTtTgGATTAtA--------AagCaTTCAAAcaaATTGTTGAa--
SARS_coronavirus_civet007             GACACTaTAA--AGAGTCTTGATTACA--------AGTCTTTCAAAACCATTGTTGAG--
SARS_coronavirus_GZ50                 GACACTaTAA--AGAGTCTTGATTACA--------AGTCTTTCAAAACCATTGTTGAG--
SARS_coronavirus_Taiwan_TC1           GACACTaTAA--AGAGTCTTGATTACA--------AGTCTTTCAAAACCATTGTTGAG--
Bat_coronavirus_(BtCoV/273/2005)      GACACTGTAA--AGAGTCTTGATTACA--------AGTCTTTtAAAgCCATTGTTGAG--
BtRf-BetaCoV/HeB2013                  GACACTGTAA--AGAGTCTTGATTACA--------AGTCTTTtAAAgCCATTGTTGAG--

SARS_CORONAVIRUS                      tcTaCaaCaGgAACtccactacctggcgtggtttgTATgAAaTcACCgAaatcAtaCCaG
Severe_acute_respiratory_syndrom      --TCCTGtGGTAAt---------------------TtTAAAGTTACaAAaGGAAAagCta
SARS_coronavirus_civet007             --TCCTGCGGTAAC---------------------TATAAAGTTACCAAGGGAAAGCCCG
SARS_coronavirus_GZ50                 --TCCTGCGGTAAC---------------------TATAAAGTTACCAAGGGAAAGCCCG
SARS_coronavirus_Taiwan_TC1           --TCCTGCGGTAAC---------------------TATAAAGTTACCAAGGGAAAGCCCG
Bat_coronavirus_(BtCoV/273/2005)      --TCtTGCGGaAAC---------------------TAcAAAGTTACCAAGGGcAAGCCtG
BtRf-BetaCoV/HeB2013                  --TCtTGCGGaAAC---------------------TAcAAAGTTACCAAGGGcAAGCCtG

SARS_CORONAVIRUS                      TtAcca----TTGagAtcTTGattAtCtaAtgTCAGTaCaccaacAAtACCAgcaTtTcG
Severe_acute_respiratory_syndrom      aAAAAGGTGCcTGGAAtATTGGtgAACAGAAATCAaTaC-----TgAgtCCtCTtTaTGc
SARS_coronavirus_civet007             TAAAAGGTGCTTGGAACATTGGACAACAGAgATCAGTTt-----TAACACCACTGTGTGG
SARS_coronavirus_GZ50                 TAAAAGGTGCTTGGAACATTGGACAACAGAgATCAGTTt-----TAACACCACTGTGTGG
SARS_coronavirus_Taiwan_TC1           TAAAAGGTGCTTGGAACATTGGACAACAGAgATCAGTTt-----TAACACCACTGTGTGG
Bat_coronavirus_(BtCoV/273/2005)      TgAAAGGTGCTTGGAACATTGGACAACAaAAATCtaTTC-----TgACACCACTGTGTGG
BtRf-BetaCoV/HeB2013                  TgAAAGGTGCTTGGAACATTGGACAACAaAAATCtaTTC-----TgACACCACTGTGTGG

SARS_CORONAVIRUS                      caTggCaTCACAGaaTtgTacTGTTtTtAacaaagcttggcgtacacgttcAcCtAagTT
Severe_acute_respiratory_syndrom      ATTTgCaTCAgAGGCTGCTcGTGTTgTacG---------------------ATCAATTTT
SARS_coronavirus_civet007             tTTTCCCTCACAGGCTGCTGGTGTTATCAG---------------------ATCAATTTT
SARS_coronavirus_GZ50                 tTTTCCCTCACAGGCTGCTGGTGTTATCAG---------------------ATCAATTTT
SARS_coronavirus_Taiwan_TC1           tTTTCCCTCACAGGCTGCTGGTGTTATCAG---------------------ATCAATTTT
Bat_coronavirus_(BtCoV/273/2005)      ATTTCCCTCACAGGCTGCTGGTGTTATtAG---------------------ATCtATTTT
BtRf-BetaCoV/HeB2013                  ATTTCCaTCACAGGCTGCTGGTGTTATtAG---------------------ATCtATTTT

SARS_CORONAVIRUS                      gGCGtatACgCgTaATatAtCtgggttttctacaAAAtCATaCcAgTCCTttTTaTtgAA
Severe_acute_respiratory_syndrom      CtCcCGCACtCTTGAaaCtGC-------------tcAaaATTCtgTgCgTGtTT-TACAg
SARS_coronavirus_civet007             tGCGCGCACACTTGATGCAGC-------------AAACCAcTCAATTCCTGATT-TgCAA
SARS_coronavirus_GZ50                 tGCGCGCACACTTGATGCAGC-------------AAACCAcTCAATTCCTGATT-TgCAA
SARS_coronavirus_Taiwan_TC1           tGCGCGCACACTTGATGCAGC-------------AAACCAcTCAATTCCTGATT-TgCAA
Bat_coronavirus_(BtCoV/273/2005)      CtCtCGCACACTaGATGCAGC-------------AAAtaATTCtATcCCaGATT-TACAA
BtRf-BetaCoV/HeB2013                  CtCtCGCACACTaGATGCAGC-------------AAAtaATTCtATcCCaGATT-TACAA

SARS_CORONAVIRUS                      AtAatcatcaTCACaAcAaTTGtATGtgacaaGTATTTCtttTaAtgtGTCACaAttaCc
Severe_acute_respiratory_syndrom      AagGCcGCTaTaACaATACTaG-ATG------GaATTTC---acAgtAtTCACTgaGaCT
SARS_coronavirus_civet007             AGAGCAGCTGTCACCATACTTG-ATG------GTATTTt---TGAACAGTCAtTACGTCT
SARS_coronavirus_GZ50                 AGAGCAGCTGTCACCATACTTG-ATG------GTATTTC---TGAACAGTCAtTACGTCT
SARS_coronavirus_Taiwan_TC1           AGAGCAGCTGTCACCATACTTG-ATG------GTATTTC---TGAACAGTCAtTACGTCT
Bat_coronavirus_(BtCoV/273/2005)      AGAGCAGCTGTCACCATcCTcG-gTG------acATTTC---cGAACAGTCACTgCGTCT
BtRf-BetaCoV/HeB2013                  AGAGCAGCTGTCACCATcCTTG-gTG------acATTTC---TGAACAGTCACTgCGTCT

SARS_CORONAVIRUS                      T-TCatCaaAATGccTTAaAgcatAGACgaGgTCtgCcAttGTGTatTTAgTAaGaCgTt
Severe_acute_respiratory_syndrom      caTtGAtGCtATGaTgTtcACATCtGAttTGgctACtAACAaTcTagTTgTaATGGCcT-
SARS_coronavirus_civet007             TGTCGACGCAATGGTTTATACtTCAGACCTGCTCACCAACAGTGTCATTATTATGGCAT-
SARS_coronavirus_GZ50                 TGTCGACGCcATGGTTTATACtTCAGACCTGCTCACCAACAGTGTCATTATTATGGCAT-
SARS_coronavirus_Taiwan_TC1           TGTCGACGCcATGGTTTATACtTCAGACCTGCTCACCAACAGTGTCATTATTATGGCAT-
Bat_coronavirus_(BtCoV/273/2005)      TGTtGAtaCAATGGTgTgTACATCAGACtTGaTtACCAACAGTGTtATcATcATGGCAT-
BtRf-BetaCoV/HeB2013                  TGTtGAtGCAATGGTgTgTACATCAGACtTGaTtACCAACAGTGTtATcATcATGGCAT-

SARS_CORONAVIRUS                      gacgTGaTAtatGTGGTaccaTgtcACcGtCTat----------TCTAAaCTTaaAGaag
Severe_acute_respiratory_syndrom      ---AcaTTACaGGTGGTgTTGTtCAgttGACTTCGCAGTGGcTaaCTAAcaTcTTtGGCA
SARS_coronavirus_civet007             ---ATGTaACTGGTGGTCTTGTACAACAGACTTCtCAGTGGTTGTCTAATCTTTTgGGCA
SARS_coronavirus_GZ50                 ---ATGTaACTGGTGGTCTTGTACAACAGACTTCtCAGTGGTTGTCTAATCTTTTgGGCA
SARS_coronavirus_Taiwan_TC1           ---ATGTaACTGGTGGTCTTGTACAACAGACTTCtCAGTGGTTGTCTAATCTTTTgGGCA
Bat_coronavirus_(BtCoV/273/2005)      ---ATGTTACTGGTGGTCTTGTACAgCAaACagtGCAaTGGTTGTCTAATgTgTTAGGCA
BtRf-BetaCoV/HeB2013                  ---ATGTTACTGGTGGTCTTGTACAgCAaACagtGCAaTGGTTGTCTAATgTgTTAGGCA

SARS_CORONAVIRUS                      tcAtgtTTagcAAcagCtGGaCaATCcTTaAgTaaATtaTaAattGtttCTTcATGttgg
Severe_acute_respiratory_syndrom      CTgtTtaTGAAAAACTCAaaCCcgTCcTTGAtTGGcT--TGAaGaGAAgtTTAAgGa---
SARS_coronavirus_civet007             CTACTGTTGAAAAACTCAGGCCTATCTTTGAATGGAT--TGAGGCGAAACTTAgTGC---
SARS_coronavirus_GZ50                 CTACTGTTGAAAAACTCAGGCCTATCTTTGAATGGAT--TGAGGCGAAACTTAgTGC---
SARS_coronavirus_Taiwan_TC1           CTACTGTTGAAAAACTCAGGCCTATCTTTGAATGGAT--TGAGGCGAAACTTAgTGC---
Bat_coronavirus_(BtCoV/273/2005)      CcACaGTcGAcAAACTCAaaCCTgTaTTTacATGGcT--TGAGaCtAAgCTTAATGC---
BtRf-BetaCoV/HeB2013                  CcACaGTcGAcAAACTCAaaCCTgTaTTTacATGGcT--TGAGaCtAAgCTTAATGC---

SARS_CORONAVIRUS                      tagttagAGaAagTGtGTcTCTtAActAcaaagtaagaatcaattaaattgtcatcttcg
Severe_acute_respiratory_syndrom      -------AGGtGTaGAGTTTCTtAgaGA--------------------------------
SARS_coronavirus_civet007             -------AGGAGTTGAaTTTCTCAAGGA--------------------------------
SARS_coronavirus_GZ50                 -------AGGAGTTGAaTTTCTCAAGGA--------------------------------
SARS_coronavirus_Taiwan_TC1           -------AGGAGTTGAaTTTCTCAAGGA--------------------------------
Bat_coronavirus_(BtCoV/273/2005)      -------AGGAaTaGAGTTTCTCAAGGA--------------------------------
BtRf-BetaCoV/HeB2013                  -------AGGAaTaGAGTTTCTCAAGGA--------------------------------

SARS_CORONAVIRUS                      tccttTtCTTGGaAGcgacaacaattagTTtTTAggAATTTagCAaaACcaGctacTTTa
Severe_acute_respiratory_syndrom      -----cGgTTGGGAa------------ATTgTTA--AATTTaTCtcaACctGTGcTTgTG
SARS_coronavirus_civet007             -----TGCTTGGGAG------------ATTCTcA--AATTTCTCATTACAGGTGTTTTTG
SARS_coronavirus_GZ50                 -----TGCTTGGGAG------------ATTCTcA--AATTTCTCATTACAGGTGTTTTTG
SARS_coronavirus_Taiwan_TC1           -----TGCTTGGGAG------------ATTCTcA--AATTTCTCATTACAGGTGTTTTTG
Bat_coronavirus_(BtCoV/273/2005)      -----TGCTTGGGAa------------ATTCTTA--AATTcCTagTTACAGGTGTgTTTG
BtRf-BetaCoV/HeB2013                  -----TGCTTGGGAa------------ATTCTTA--AATTcCTagTTACAGGTGTgTTTG

SARS_CORONAVIRUS                      tCATTGT-AgAtGTCAAAagC-----cCTgtAtACgACATCAgtactagtgcctgtgccG
Severe_acute_respiratory_syndrom      AaATTGTCggtGGaCAAATtgtcacctgTgCAaAggAaATtAA----------------G
SARS_coronavirus_civet007             ACATcGTCAAgGGTCAAATACAGGTtgCTTCAGAtAACATCAA----------------G
SARS_coronavirus_GZ50                 ACATcGTCAAgGGTCAAATACAGGTtgCTTCAGAtAACATCAA----------------G
SARS_coronavirus_Taiwan_TC1           ACATcGTCAAgGGTCAAATACAGGTtgCTTCAGAtAACATCAA----------------G
Bat_coronavirus_(BtCoV/273/2005)      ACATTGTtAAAGGTCAAATACgGGTgttTTCgGACAACcTCAA----------------a
BtRf-BetaCoV/HeB2013                  ACATTGTtAAAGGTCAAATACgGGTgttTTCAGACAACcTCAA----------------a

SARS_CORONAVIRUS                      cAcgGTGTAAgAcggGCTgCAcTtAcaccGcaAACc---CgtTtaAAAacgatTGTGCAT
Severe_acute_respiratory_syndrom      GAgaGTGTtcAgA--caTTCtTTaAgcTTGTaAAtAAAttttTgGctt-----TGTGtgc
SARS_coronavirus_civet007             GATTGTGTAAAAt--GCTTCATTGATGTTGTTAACAAgGCACTCGAAA-----TGTGCAT
SARS_coronavirus_GZ50                 GATTGTGTAAAAt--GCTTCATTGATGTTGTTAACAAgGCACTCGAAA-----TGTGCAT
SARS_coronavirus_Taiwan_TC1           GATTGTGTAAAAt--GCTTCATTGATGTTGTTAACAAgGCACTCGAAA-----TGTGCAT
Bat_coronavirus_(BtCoV/273/2005)      GAaTGTGTAAAAA--ctTTtgTTGgTGTTGTcAACAAAGCgCTtGAAA-----TGTGCAT
BtRf-BetaCoV/HeB2013                  GAaTGTGTAAAAA--ctTTtgTTGgTGTTGTcAAtAAAGCgCTtGAAA-----TGTGCAT

SARS_CORONAVIRUS                      cagCtgAcTgAagcatGggttCGCggAGTT--GATCAC--AACTacaGccAtaaCcTTtc
Severe_acute_respiratory_syndrom      TGACtctaTCAtTATtGgTGGaGCtAAacTtAaAgCctTgAAtTTAGGTGAAacaTTTgT
SARS_coronavirus_civet007             TGAtCAAGTCACTATCGCTGGCGCAAAGTTGcGATCACTCAACTTAGGTGAAGTCTTcAT
SARS_coronavirus_GZ50                 TGAtCAAGTCACTATCGCTGGCGCAAAGTTGcGATCACTCAACTTAGGTGAAGTCTTcAT
SARS_coronavirus_Taiwan_TC1           TGAtCAAGTCACTATCGCTGGCGCAAAGTTGcGATCACTCAACTTAGGTGAAGTCTTcAT
Bat_coronavirus_(BtCoV/273/2005)      TGACCAAGTCACaATCGCaGGCaCcAAGgTGAGATCACTCAACcTtGGaGAgGTtTTTAT
BtRf-BetaCoV/HeB2013                  TGACCAAGTCACaATCGCaGGCaCcAAGgTGAGATCACTCAACcTtGGaGAgGTtTTTAT

SARS_CORONAVIRUS                      CaCatAccGCA---GACggTACaGaCtGTGTtTTtaaGtgtaaaaccCAcAGGgtCatta
Severe_acute_respiratory_syndrom      CaCGCActcaAAGGGAtTgTACaGaaAGTGTgTTaaat--------cCAgAGaAGa----
SARS_coronavirus_civet007             CGCtCAAAGCAAGGGACTtTACCGTCAGTGTATaCGTG--------GCA-AGGAGC----
SARS_coronavirus_GZ50                 CGCtCAAAGCAAGGGACTtTACCGTCAGTGTATaCGTG--------GCA-AGGAGC----
SARS_coronavirus_Taiwan_TC1           CGCtCAAAGCAAGGGACTtTACCGTCAGTGTATaCGTG--------GCA-AGGAGC----
Bat_coronavirus_(BtCoV/273/2005)      tGCGCAAAGCAAGGGcCTcTACCGTCAGTGTgTTCGTG--------GCA-AGGAGC----
BtRf-BetaCoV/HeB2013                  tGCGCAAAGCAAGGGcCTcTAtCGTCAGTGTgTTCGTG--------GCA-AGGAGC----

SARS_CORONAVIRUS                      gcacaAGtTGtAggTAtTtgtacataCtTaCCTtTTAAGtCACaAAAtcctttAGgAttt
Severe_acute_respiratory_syndrom      -----AaCTG-gcCTACT--------CATGCCTCTaAAaGCcCCAAA------AGAA---
SARS_coronavirus_civet007             -----AGCTGCAACTACT--------CATGCCTCTTAAGGCACCAAA------AGAA---
SARS_coronavirus_GZ50                 -----AGCTGCAACTACT--------CATGCCTCTTAAGGCACCAAA------AGAA---
SARS_coronavirus_Taiwan_TC1           -----AGCTGCAACTACT--------CATGCCTCTTAAGGCACCAAA------AGAA---
Bat_coronavirus_(BtCoV/273/2005)      -----AGCTGCAACTACT--------CATGCCTtTgAAGGCACCtAA------AGAA---
BtRf-BetaCoV/HeB2013                  -----AGCTGCAACTACT--------CATGCCTtTgAAGGCACCtAA------AGAA---

SARS_CORONAVIRUS                      ggaTgAtCTaTgTgGcaAcGGcagTaCAgAcaACACgatgcaccaccaaaggattcttga
Severe_acute_respiratory_syndrom      --aTtAtCTTctTaG--AgGGAGAaaCACtTccCACA-----------------------
SARS_coronavirus_civet007             --GTAACCTTTCTTG--AAGGtGATTCACATGACACA-----------------------
SARS_coronavirus_GZ50                 --GTAACCTTTCTTG--AAGGtGATTCACATGACACA-----------------------
SARS_coronavirus_Taiwan_TC1           --GTAACCTTTCTTG--AAGGtGATTCACATGACACA-----------------------
Bat_coronavirus_(BtCoV/273/2005)      --GTcACtTTcCTTG--AAGGAGAcTCACATGAtACA-----------------------
BtRf-BetaCoV/HeB2013                  --GTcACtTTcCTTG--AAGGAGAcTCACATGAtACA-----------------------

SARS_CORONAVIRUS                      tccaTAtTggCtTCCGgtGtaacTGTTaTtgcctgacCAgtAcCaGTGtgtgtacacaac
Severe_acute_respiratory_syndrom      ---GaAgTgttaaCaGAGGAaGTTGTctT--------gAAAActGGTG------------
SARS_coronavirus_civet007             ---GTACTTACCTCtGAGGAGGTTGTTCT--------CAAgAACGGTG------------
SARS_coronavirus_GZ50                 ---GTACTTACCTCtGAGGAGGTTGTTCT--------CAAgAACGGTG------------
SARS_coronavirus_Taiwan_TC1           ---GTACTTACCTCtGAGGAGGTTGTTCT--------CAAgAACGGTG------------
Bat_coronavirus_(BtCoV/273/2005)      ---GTACTaAtCTCCGAaGAGGTTGTTCT--------tAAAAAtGGTG------------
BtRf-BetaCoV/HeB2013                  ---GTACTaAtCTCCGAaGAGGTTGTTCT--------tAAAAAtGGTG------------

SARS_CORONAVIRUS                      AtCTtaAcaCAaTtagtgattggttgtcccccactagCtAGAtAatCtTTGtaAGCTTtA
Severe_acute_respiratory_syndrom      AttTacAAcCAtT------------------------aGAacaACCta------------
SARS_coronavirus_civet007             AACTCGAAGCACT------------------------CGAGACgCCCGTTGATAGCTTCA
SARS_coronavirus_GZ50                 AACTCGAAGCACT------------------------CGAGACgCCCGTTGATAGCTTCA
SARS_coronavirus_Taiwan_TC1           AACTCGAAGCACT------------------------CGAGACgCCCGTTGATAGCTTCA
Bat_coronavirus_(BtCoV/273/2005)      AgCTtGAAGCACT------------------------CGAGACACCaGTTGAcAGtTTCA
BtRf-BetaCoV/HeB2013                  AgCTtGAAGCACT------------------------CGAGACACCaGTTGAcAGtTTCA

SARS_CORONAVIRUS                      gcagcatctacagcaaaagCAcAgaaAGaTAatacAGtTgaATTGGcaGGCACttCtGT-
Severe_acute_respiratory_syndrom      -------------------CtAgTGaAGCTgTtgaAGcTccATTGGTTGGtACACCAGTt
SARS_coronavirus_civet007             -------------------CAAATGGAGCTATC------------GTTGGCAtACCAGTC
SARS_coronavirus_GZ50                 -------------------CAAATGGAGCTATC------------GTTGGCACACCAGTC
SARS_coronavirus_Taiwan_TC1           -------------------CAAATGGAGCTATC------------GTTGGCACACCAGTC
Bat_coronavirus_(BtCoV/273/2005)      -------------------CAAATGGAGCcgTC------------GTaGGCACtCCAGTt
BtRf-BetaCoV/HeB2013                  -------------------ttAATGGAGCcgTC------------GTaGGCAatCCAGTt

SARS_CORONAVIRUS                      TGcaTtAccaGCtTgtagaCgTaCTgTggcAGcTaAActACcAAGtACcatacctctatt
Severe_acute_respiratory_syndrom      TGTaTtAAcGGgCT-----tATGtTgcTcGAaATCAAAGACAcAGAAa------------
SARS_coronavirus_civet007             TGTGTAAATGGCCT-----CATGCTCTTAGAGATtAAgGACAAAGAAC------------
SARS_coronavirus_GZ50                 TGTGTAAATGGCCT-----CATGCTCTTAGAGATtAAgGACAAAGAAC------------
SARS_coronavirus_Taiwan_TC1           TGTGTAAATGGCCT-----CATGCTCTTAGAGATtAAgGACAAAGAAC------------
Bat_coronavirus_(BtCoV/273/2005)      TGTGTcAATGGCCT-----CATGCTCTTgGAGcTCAAAGAtAAgGAAC------------
BtRf-BetaCoV/HeB2013                  TGTGTcAATGGCCT-----CATGCTCTTgGAGcTCAAAGAtAAgGAAC------------

SARS_CORONAVIRUS                      taggttgtttaatcctttaataaagtataAATACTtCaCtTTaggAcCTttaGGTgTgtc
Severe_acute_respiratory_syndrom      -----------------------------AgTACTGtGCccT---tgCaCCTaaTaTgaT
SARS_coronavirus_civet007             -----------------------------AATACTGCGCATT---gTCTCCTGGTTTACT
SARS_coronavirus_GZ50                 -----------------------------AATACTGCGCATT---gTCTCCTGGTTTACT
SARS_coronavirus_Taiwan_TC1           -----------------------------AATACTGCGCATT---gTCTCCTGGTTTACT
Bat_coronavirus_(BtCoV/273/2005)      -----------------------------AgTAtTGtGCtTT---ATCTCCaGGcTTAtT
BtRf-BetaCoV/HeB2013                  -----------------------------AgTAtTGtGCtTT---ATCTCCaGGcTTAtT

SARS_CORONAVIRUS                      tGtaACAAACctacaaggtggttccagttctgtatagatagtaccagttccatcactctt
Severe_acute_respiratory_syndrom      GGtaACAAAC--------------------------------------------------
SARS_coronavirus_civet007             GGCTACAAAC--------------------------------------------------
SARS_coronavirus_GZ50                 GGCTACAAAC--------------------------------------------------
SARS_coronavirus_Taiwan_TC1           GGCTACAAAC--------------------------------------------------
Bat_coronavirus_(BtCoV/273/2005)      aGCTACAAAC--------------------------------------------------
BtRf-BetaCoV/HeB2013                  aGCTACAAAC--------------------------------------------------

SARS_CORONAVIRUS                      agggAATcTagcCCatTTcAAAtcctGTaaAtCggaTAAcaGTGcAAgtacaaacctacc
Severe_acute_respiratory_syndrom      ----AATacCTTCacacTcAAAGGcGGTGCACCAAcaAAgGtTa----------------
SARS_coronavirus_civet007             ----AATGTCTTtCGCTTAAAAGGGGGTGCACCAATTAAAGGTGTAA-------------
SARS_coronavirus_GZ50                 ----AATGTCTTtCGCTTAAAAGGGGGTGCACCAATTAAAGGTGTAA-------------
SARS_coronavirus_Taiwan_TC1           ----AATGTCTTtCGCTTAAAAGGGGGTGCACCAATTAAAGGTGTAA-------------
Bat_coronavirus_(BtCoV/273/2005)      ----AATGTCTTCCGtcTAAAtGGaGGTGCACCggTTAAAGGTGTAA-------------
BtRf-BetaCoV/HeB2013                  ----AATGTtTTCCGtcTAAAtGGaGGTGCACCggTTAAAGGTGTAA-------------

SARS_CORONAVIRUS                      tcCCTTTGttgtgttgtagtaAGctaACgCatTgTcAtcAGTgCAAGcaGTTtgtgtagt
Severe_acute_respiratory_syndrom      --CtTTTG------------GtGAtGACACTGTgaTAGAAGTgCAAG--GTT--------
SARS_coronavirus_civet007             --CCTTTG------------GAGAAGAtACTGTTTTtGAAGTTCAAG--GTT--------
SARS_coronavirus_GZ50                 --CCTTTG------------GAGAAGAtACTGTTTggGAAGTTCAAG--GTT--------
SARS_coronavirus_Taiwan_TC1           --CCTTTG------------GAGAAGAtACTGTTTggGAAGTTCAAG--GTT--------
Bat_coronavirus_(BtCoV/273/2005)      --CCTTTG------------GAGAAaACACTGTTTTAGAAGTTCAAG--GTT--------
BtRf-BetaCoV/HeB2013                  --CCTTTG------------GAGAAaACACTGTTTTAGAAGTTCAAG--GTT--------

SARS_CORONAVIRUS                      accggcagcACAAGA-caTGAAtATCACtTTTGAaCTTGATGAAaGgaTTGAtAAAGTaC
Severe_acute_respiratory_syndrom      ---------ACAAGAgTGTGAAtATCACtTTTGAaCTTGATGAAaGgaTTGAtAAAGTaC
SARS_coronavirus_civet007             ---------ACAAGAATGTGAgAATCACATTTGAGCTTGATGAACGTGTTGACAAAGTGC
SARS_coronavirus_GZ50                 ---------ACAAGAATGTGAgAATCACATTTGAGCTTGATGAACGTGTTGACAAAGTGC
SARS_coronavirus_Taiwan_TC1           ---------ACAAGAATGTGAgAATCACATTTGAGCTTGATGAACGTGTTGACAAAGTGC
Bat_coronavirus_(BtCoV/273/2005)      ---------ACAAGAATGTGAAAATCACATTTGAGCTTGATGAgCGTGTaGACAAAGTGC
BtRf-BetaCoV/HeB2013                  ---------ACAAGAATGTGAAAATCACATTTGAGCTTGATGAgCGTGTaGACAAAGTGC

SARS_CORONAVIRUS                      TTAATGAGAAGTGCTCTGcCTAtACaGTTGAActCGGTACAGAAGTaAaTGAGTTCGCcT
Severe_acute_respiratory_syndrom      TTAATGAGAAGTGCTCTGcCTAtACaGTTGAActCGGTACAGAAGTaAaTGAGTTCGCcT
SARS_coronavirus_civet007             TTAATGAaAAGTGCTCTGTCTACACTGTTGAATCCGGTACcGAAGTTACTGAGTTtGCAT
SARS_coronavirus_GZ50                 TTAATGAaAAGTGCTCTGTCTACACTGTTGAATCCGGTACcGAAGTTACTGAGTTtGCAT
SARS_coronavirus_Taiwan_TC1           TTAATGAaAAGTGCTCTGTCTACACTGTTGAATCCGGTACcGAAGTTACTGAGTTtGCAT
Bat_coronavirus_(BtCoV/273/2005)      TTAAcGAGAAGTGtTCTGTCTACACTGTTGAATCCGGTACAGAgGTTACTGAaTTCGCAT
BtRf-BetaCoV/HeB2013                  TTAATGAGAAGTGtTCTGTCTACACTGTTGAATCCGGTACAGAgGTTACTGAaTTCGCAT

SARS_CORONAVIRUS                      GTGTTGTgGCAGAtGCTGTcaTAAAAACTTTGCAACCAGTaTCTGAatTaCTTACaccac
Severe_acute_respiratory_syndrom      GTGTTGTgGCAGAtGCTGTcaTAAAAACTTTGCAACCAGTaTCTGAatTaCTTACaccac
SARS_coronavirus_civet007             GTGTTGTAGCAGAGGCTGTTGTgAAgACTTTaCAACCAGTTTCTGATCTCCTTACCAACA
SARS_coronavirus_GZ50                 GTGTTGTAGCAGAGGCTGTTGTgAAgACTTTaCAACCAGTTTCTGATCTCCTTACCAACA
SARS_coronavirus_Taiwan_TC1           GTGTTGTAGCAGAGGCTGTTGTgAAgACTTTaCAACCAGTTTCTGATCTCCTTACCAACA
Bat_coronavirus_(BtCoV/273/2005)      GTGTTGTtGCAGAaGCcGTTGTAAAAACTTTGCAACCAGTTTCTGAcCTtCTTACtAAgA
BtRf-BetaCoV/HeB2013                  GTGTTGTtGCAGAaGCcGTTGTAAAAACTTTGCAACCAGTTTCTGAcCTtCTTACtAAgA

SARS_CORONAVIRUS                      TGGGcATTGATtTaGATGAGTGGAGTaTgGCTACATaCTACTTATTTGATGAgtCTGGTG
Severe_acute_respiratory_syndrom      TGGGcATTGATtTaGATGAGTGGAGTaTgGCTACATaCTACTTATTTGATGAgtCTGGTG
SARS_coronavirus_civet007             TGGGTATTGATCTTGATGAGTGGAGTGTAGCTACATTCTACTTATTTGATGATGCTGGTG
SARS_coronavirus_GZ50                 TGGGTATTGATCTTGATGAGTGGAGTGTAGCTACATTCTACTTATTTGATGATGCTGGTG
SARS_coronavirus_Taiwan_TC1           TGGGTATTGATCTTGATGAGTGGAGTGTAGCTACATTCTACTTATTTGATGATGCTGGTG
Bat_coronavirus_(BtCoV/273/2005)      TGGGTATTGAcCTTGATGAGTGGAGTGTAGCTACATTCTACTTgTTTGATGATGCTGGTG
BtRf-BetaCoV/HeB2013                  TGGGTATTGAcCTTGAcGAGTGGAGTGTAGCTACATTCTACTTgTTTGATGATGCTGGTG

SARS_CORONAVIRUS                      AgtttAAATTggCtTCACaTATGTATTGTTCtTTTTACCCTCCAGATGAGGAtGAAGAaG
Severe_acute_respiratory_syndrom      AgtttAAATTggCtTCACaTATGTATTGTTCtTTcTACCCTCCAGATGAGGAtGAAGAaG
SARS_coronavirus_civet007             AAGAAAAcTTTTCATCACGTATGTATTGTTCCTTTTACCCTCCAGATGAGGAAGAAGAGG
SARS_coronavirus_GZ50                 AAGAAAAcTTTTCATCACGTATGTATTGTTCCTTTTACCCTCCAGATGAGGAAGAAGAGG
SARS_coronavirus_Taiwan_TC1           AAGAAAAcTTTTCATCACGTATGTATTGTTCCTTTTACCCTCCAGATGAGGAAGAAGAGG
Bat_coronavirus_(BtCoV/273/2005)      AAGAAAAAcTTTCATCACGcATGTAcTGTTCCTTcTACCCTCCtGATGAGGAAGAAGAct
BtRf-BetaCoV/HeB2013                  AAGAAAAAcTTTCATCACGcATGTAcTGTTCCTTcTACCCTCCtGATGAGGAAGAAGAct

SARS_CORONAVIRUS                      AaGgT------GAtTGTGAaGAAGAAGAgtTTGAgccAtCaacTcAAtATGAGTAtGGTA
Severe_acute_respiratory_syndrom      AaGgT------GAtTGTGAaGAAGAAGAgtTTGAgccAtCaacTcAAtATGAGTAtGGTA
SARS_coronavirus_civet007             ACGATGCA---GAGTGTGAGGAAGAAGAAATTGATGAAACCTGTGAACATGAGTACGGTA
SARS_coronavirus_GZ50                 ACGATGCA---GAGTGTGAGGAAGAAGAAATTGATGAAACCTGTGAACATGAGTACGGTA
SARS_coronavirus_Taiwan_TC1           ACGATGCA---GAGTGTGAGGAAGAAGAAATTGATGAAACCTGTGAACATGAGTACGGTA
Bat_coronavirus_(BtCoV/273/2005)      gCGAaGagTATGAGgaTGAGGAAGAAGttccTGATGAAACCTGTGAACAcGAaTACGGcA
BtRf-BetaCoV/HeB2013                  gCGAaGagTATGAGgGTGAGGAAGAAGttccTGATGgAACCTGTGAACATGAaTACGGcA

SARS_CORONAVIRUS                      CtGAaGATGATTAcCAAGGTaaaCCTtTGGAATTTGGTGCCaCttCTGctgCtCTTCAAc
Severe_acute_respiratory_syndrom      CtGAaGATGATTAcCAAGGTaaaCCTtTGGAATTTGGTGCCaCttCTGctgCtCTTCAAc
SARS_coronavirus_civet007             CAGAGGATGATTATCAAGGTCTCCCTCTGGAATTTGGTGCCTCAGCTGAAACAgTTCgAG
SARS_coronavirus_GZ50                 CAGAGGATGATTATCAAGGTCTCCCTCTGGAATTTGGTGCCTCAGCTGAAACAgTTCgAG
SARS_coronavirus_Taiwan_TC1           CAGAGGATGATTATCAAGGTCTCCCTCTGGAATTTGGTGCCTCAGCTGAAACAgTTCgAG
Bat_coronavirus_(BtCoV/273/2005)      CAGAGGATGAcTATaAAGGTCTtCCTCTtGAgTTTGGTtCgTCAaCaGAAAtACaaCAgG
BtRf-BetaCoV/HeB2013                  CAGAGGATGAcTATaAAGGTCTtCCTCTtGAgTTTGGTtCgTCAaCaGAAAtACaaCAgG

SARS_CORONAVIRUS                      cTGAAGAAGAgcAAGAaGAAGAtTGGtTaGATGATGaTAGTc-AaCAAaCtGttggTcAA
Severe_acute_respiratory_syndrom      cTGAAGAAGAgcAAGAaGAAGAtTGGtTaGATGATGaTAGTc-AaCAAaCtGttggTcAA
SARS_coronavirus_civet007             TTGAgGAAGAAGAAGAGGAAGACTGGCTGGATGATaCTAcTG-AGCAATCAGAGATTGAg
SARS_coronavirus_GZ50                 TTGAgGAAGAAGAAGAGGAAGACTGGCTGGATGATaCTAcTG-AGCAATCAGAGATTGAg
SARS_coronavirus_Taiwan_TC1           TTGAgGAAGAAGAAGAGGAAGACTGGCTGGATGATaCTAcTG-AGCAATCAGAGATTGAg
Bat_coronavirus_(BtCoV/273/2005)      TT---GAAGAtGAAGAGGAAGACTGGCTtGATGATGtTgGTGAAGCA----------GAA
BtRf-BetaCoV/HeB2013                  T---AGAcGAtGAAGAGGAAGACTGGCTtGATGATGCTgGTGAAGCA----------GAA

SARS_CORONAVIRUS                      CaAGACGGCAGTGAGGACAAtCAGACAACTACTATTCAAACAATTGTTGAGGTTCAaCct
Severe_acute_respiratory_syndrom      CaAGACGGCAGTGAGGACAAtCAGACAACTACTATTCAAACAATTGTTGAGGTTCAaCct
SARS_coronavirus_civet007             CCAG--------------AACCAGA------------------------------ACCTA
SARS_coronavirus_GZ50                 CCAG--------------AACCAGA------------------------------ACCTA
SARS_coronavirus_Taiwan_TC1           CCAG--------------AACCAGA------------------------------ACCTA
Bat_coronavirus_(BtCoV/273/2005)      CCtG--------------AACCAGA------------------------------ACCTc
BtRf-BetaCoV/HeB2013                  CCtG--------------AACCAGA------------------------------ACCTc

SARS_CORONAVIRUS                      CAatTagAGATGGAACTTACACCAGTTgtTCAGACTATTGAAGTGAATAGTTTTAgTGGT
Severe_acute_respiratory_syndrom      CAatTagAGATGGAACTTACACCAGTTgtTCAGACTATTGAAGTGAATAGTTTTAgTGGT
SARS_coronavirus_civet007             CACCTGAAGA----------ACCAGTTAATCAG------------------TTTACTGGT
SARS_coronavirus_GZ50                 CACCTGAAGA----------ACCAGTTAATCAG------------------TTTACTGGT
SARS_coronavirus_Taiwan_TC1           CACCTGAAGA----------ACCAGTTAATCAG------------------TTTACTGGT
Bat_coronavirus_(BtCoV/273/2005)      tACCTGcAGA----------ACCAGTTAATCAG------------------TTTACTGGT
BtRf-BetaCoV/HeB2013                  tACCTGAAGA----------ACCAGTTAATCAG------------------TTTACTGGT

SARS_CORONAVIRUS                      TATTTAAAACTTACTGACAATGTataCATTAAAaaTGcaGACATtGTggAaGAAGCtaAA
Severe_acute_respiratory_syndrom      TATTTAAAACTTACTGACAATGTataCATTAAAaaTGcaGACATtGTggAaGAAGCtaAA
SARS_coronavirus_civet007             TATTTAAAACTTACTGACAATGTTGCCATTAAATGTGTTGACATCGTTAAGGAgGCACAA
SARS_coronavirus_GZ50                 TATTTAAAACTTACTGACAATGTTGCCATTAAATGTGTTGACATCGTTAAGGAgGCACAA
SARS_coronavirus_Taiwan_TC1           TATTTAAAACTTACTGACAATGTTGCCATTAAATGTGTTGACATCGTTAAGGAgGCACAA
Bat_coronavirus_(BtCoV/273/2005)      TAcTTtAAACTTACTGACAATGTTGCCATTAAATGTGTTGACATCGTTAAGGAAGCgCAA
BtRf-BetaCoV/HeB2013                  TAcTTtAAACTcACTGACAATGTTGCCATTAAATGTGTTGACATCGTTAAGGAAGCgCAA

SARS_CORONAVIRUS                      AagGtaAAACCaACaGTGgTTGTTAATGCaGCcAAtgTttACCTtAAACATGGaGGaGGT
Severe_acute_respiratory_syndrom      AagGtaAAACCaACaGTGgTTGTTAATGCaGCcAAtgTttACCTtAAACATGGaGGaGGT
SARS_coronavirus_civet007             AGTGCTAAtCCTAtGGTGATTGTaAATGCTGCTAACATACACCTGAAACATGGTGGTGGT
SARS_coronavirus_GZ50                 AGTGCTAAtCCTAtGGTGATTGTaAATGCTGCTAACATACACCTGAAACATGGTGGTGGT
SARS_coronavirus_Taiwan_TC1           AGTGCTAAtCCTAtGGTGATTGTaAATGCTGCTAACATACACCTGAAACATGGTGGTGGT
Bat_coronavirus_(BtCoV/273/2005)      AGTGCcAAACCTgCGGTtATTGTTAATGCTGCTAACATtCACCTaAAACATGGTGGTGGT
BtRf-BetaCoV/HeB2013                  AGTGCcAAACCggCGGTGATTGTTAAcGCTGCTAACATcCACCTaAAACATGGTGGTGGT

SARS_CORONAVIRUS                      GTtGCAGGaGCctTaAAtAAGGCtACtAAcaaTGCCATGCAAgttGAatcTGATGATTAC
Severe_acute_respiratory_syndrom      GTtGCAGGaGCctTaAAtAAGGCtACtAAcaaTGCCATGCAAgttGAatcTGATGATTAC
SARS_coronavirus_civet007             GTAGCAGGTGCACTCAACAAGGCAACCAATGGTGCCATGCAAAAGGAGAGTGATGATTAC
SARS_coronavirus_GZ50                 GTAGCAGGTGCACTCAACAAGGCAACCAATGGTGCCATGCAAAAGGAGAGTGATGATTAC
SARS_coronavirus_Taiwan_TC1           GTAGCAGGTGCACTCAACAAGGCAACCAATGGTGCCATGCAAAAGGAGAGTGATGATTAC
Bat_coronavirus_(BtCoV/273/2005)      GTAGCAGGTGCACTCAACAAaGCAACCAATGGTGCCATGCAAcAGGAGAGTGATGATTAC
BtRf-BetaCoV/HeB2013                  GTAGCAGGTGCACTCAACAAGGCAACtAATGGTGCCATGCAAcAGGAGAGTGATGATTAC

SARS_CORONAVIRUS                      AT--AGCTACTAATGGACCACTTAaAGTgGGTGGTagTTGTgTttTaagcGGACACAATC
Severe_acute_respiratory_syndrom      AT--AGCTACTAATGGACCACTTAaAGTgGGTGGTagTTGTgTttTaagcGGACACAATC
SARS_coronavirus_civet007             ATTAAGCTA--AATGGcCCtCTTACAGTAGGaGGgTCTTGTTTGCTTTCTGGACAtAATC
SARS_coronavirus_GZ50                 ATTAAGCTA--AATGGcCCtCTTACAGTAGGaGGgTCTTGTTTGCTTTCTGGACAtAATC
SARS_coronavirus_Taiwan_TC1           ATTAAGCTA--AATGGcCCtCTTACAGTAGGaGGgTCTTGTTTGCTTTCTGGACAtAATC
Bat_coronavirus_(BtCoV/273/2005)      ATTAAaCgA--AATGGACCACTcACAGTAGGTGGTTCaTGTTTGCTTTCTGGACACAATt
BtRf-BetaCoV/HeB2013                  ATTAAaCgA--AATGGACCACTcACAGTAGGTGGTTCaTGTTTGCTTTCTGGACACAATt

SARS_CORONAVIRUS                      TTGCTAAacAcTGTCTtCATGTTGTcGGCCCAAAtgTtAAcaaAGGTGAaGACATtCAAC
Severe_acute_respiratory_syndrom      TTGCTAAacAcTGTCTtCATGTTGTcGGCCCAAAtgTtAAcaaAGGTGAaGACATtCAAC
SARS_coronavirus_civet007             TTGCTAAGAAGTGTCTGCATGTTGTTGGaCCtAACCTAAAcGCAGGTGAGGACATCCggC
SARS_coronavirus_GZ50                 TTGCTAAGAAGTGTCTGCATGTTGTTGGaCCtAACCTAAATGCtGGTGAGGACATCCAgC
SARS_coronavirus_Taiwan_TC1           TTGCTAAGAAGTGTCTGCATGTTGTTGGaCCtAACCTAAATGCAGGTGAGGACATCCAgC
Bat_coronavirus_(BtCoV/273/2005)      TgGCTAAGAAGTGTaTGCATGTTGTTGGCCCAAACCTAAATGCtGGTGAGGAtATCCAAC
BtRf-BetaCoV/HeB2013                  TgGCTAAGAAGTGTaTGCATGTTGTTGGCCCAAACCTAAATGCtGGTGAtGAtgTCCAAC

SARS_CORONAVIRUS                      TTCTTAAGagTGCtTATGAAAATTTTAATcagCAcGAaGTtcTACTTGCACCATTATTaT
Severe_acute_respiratory_syndrom      TTCTTAAGagTGCtTATGAAAATTTTAATcagCAcGAaGTtcTACTTGCACCATTATTaT
SARS_coronavirus_civet007             TTCTTAAGGCaGCATATGAAAATTTcAATTCACAGGACacCTTACTTGCACCATTgTTGT
SARS_coronavirus_GZ50                 TTCTTAAGGCaGCATATGAAAATTTcAATTCACAGGACaTCTTACTTGCACCATTgTTGT
SARS_coronavirus_Taiwan_TC1           TTCTTAAGGCaGCATATGAAAATTTcAATTCACAGGACaTCTTACTTGCACCATTgTTGT
Bat_coronavirus_(BtCoV/273/2005)      TaCTTAAaGCTGCATATGAcAAcTTTAATTCACAGGACGTaTTACTTGCACCAcTAcTGT
BtRf-BetaCoV/HeB2013                  TaCTTAAaGCTGCATATaAcAAcTTTAATTCACAGGACGTaTTACTTGCACCAcTAcTGT

SARS_CORONAVIRUS                      CAGCtGGtATtTTTGGTGCTgAcCCtaTaCAtTCTTTAAgAGTtTGTGTagtctcttgta
Severe_acute_respiratory_syndrom      CAGCtGGtATtTTTGGTGCTgAcCCtaTaCAtTCTTTAAgAGTtTGTGTa----------
SARS_coronavirus_civet007             CAGCAGGCATATTTGGTGCTAAACCACTTCAGTCTTTAcAAGTGTGcGTG----------
SARS_coronavirus_GZ50                 CAGCAGGCATATTTGGTGCTAAACCACTTCAGTCTTTAcAAGTGTGcGTG----------
SARS_coronavirus_Taiwan_TC1           CAGCAGGCATATTTGGTGCTAAACCACTTCAGTCTTTAcAAGTGTGcGTG----------
Bat_coronavirus_(BtCoV/273/2005)      CAGCAGGCATATTTGGTGCTAAACCACTTCAGTCTTTAAAgaTGTGTGTt----------
BtRf-BetaCoV/HeB2013                  CAGCAGGCATATTTGGTGCTAAACCACTTCAGTCTTTAAAgaTGTGTGTt----------

SARS_CORONAVIRUS                      gatctgttctctAAACGaactttaaaatctgtgtggctgtcacTCGgctgCAtGcTTAgt
Severe_acute_respiratory_syndrom      -----------gAtACt------------------------GTTCGCACAaAtGTcTAC-
SARS_coronavirus_civet007             -----------CAgACG------------------------GTTCGtACACAGGTTTAt-
SARS_coronavirus_GZ50                 -----------CAgACG------------------------GTTCGtACACAGGTTTAt-
SARS_coronavirus_Taiwan_TC1           -----------CAgACG------------------------GTTCGtACACAGGTTTAt-
Bat_coronavirus_(BtCoV/273/2005)      -----------gAAgta------------------------GTTCGCACACAaGTTTAC-
BtRf-BetaCoV/HeB2013                  -----------gAAgta------------------------GTTCGCACACAaGTTTAC-

SARS_CORONAVIRUS                      gcactcacgcagtataattaataactaATTaCtGTCgtTGACAggacacgagtaactcgt
Severe_acute_respiratory_syndrom      ---------------------------tTaGCtGTCttTGAtA-----------------
SARS_coronavirus_civet007             ---------------------------ATTGCAGTCAATGACA-----------------
SARS_coronavirus_GZ50                 ---------------------------ATTGCAGTCAATGACA-----------------
SARS_coronavirus_Taiwan_TC1           ---------------------------ATTGCAGTCAATGACA-----------------
Bat_coronavirus_(BtCoV/273/2005)      ---------------------------cTcGCgGTCAATGAtA-----------------
BtRf-BetaCoV/HeB2013                  ---------------------------cTcGCAGTCAATGAtA-----------------

SARS_CORONAVIRUS                      ctatcttctgcAgGCTgcTTAcGgtttcgtcCgtGTTGcAgccGATcATCaGcACAtCta
Severe_acute_respiratory_syndrom      -----------AAaaTCTcTATGAc------aAacTTGTttcAagcTtTtTGGAaA----
SARS_coronavirus_civet007             -----------AAGCTCTTTATGAg------CAGGTTGTcATgGATTATCTtGAtAAC--
SARS_coronavirus_GZ50                 -----------AAGCTCTTTATGAg------CAGGTTGTcATgGATTATCTtGAtAAC--
SARS_coronavirus_Taiwan_TC1           -----------AAGCTCTTTATGAg------CAGGTTGTcATgGATTATCTtGAtAAC--
Bat_coronavirus_(BtCoV/273/2005)      -----------ggagTCTTTATGAt------CAGGTTGTAtTAGATTATCTGGACAgt--
BtRf-BetaCoV/HeB2013                  -----------ggagTCTTTATGAt------CAGGTTGTAtTAGATTATCTGGACAgt--

SARS_CORONAVIRUS                      ggttttgtccgggtgtgaCcGAAaggTAAgaTGGAgagcCtTgtcCctGgttTCaacGAG
Severe_acute_respiratory_syndrom      -------------------TGAAGagTgAAaaGcAAG---tTgAACAAaAGaTCgctGAG
SARS_coronavirus_civet007             ------------------CTGAAGCCTAgAGTGGAAGCACCTAAACAAGAG------GAG
SARS_coronavirus_GZ50                 ------------------CTGAAGCCTAgAGTGGAAGCACCTAAACAAGAG------GAG
SARS_coronavirus_Taiwan_TC1           ------------------CTGAAGCCTAgAGTGGAAGCACCTAAACAAGAG------GAG
Bat_coronavirus_(BtCoV/273/2005)      ------------------tTGAAaCCTAAAGTGGAgtCtCCcAAAaAgGAG------GAG
BtRf-BetaCoV/HeB2013                  ------------------tTGAAaCCTAAAGTGGAgtCtCCcAAgaAgGAG------GAG

SARS_CORONAVIRUS                      AAAaCAcACg--------------TCCAActCaG----tttgcCT---GTttTACAGgtt
Severe_acute_respiratory_syndrom      AttCCtAAagagGAAGtTaagccaTttAtAACTGAAagtAAAcCTtcaGTtGaACAGAgA
SARS_coronavirus_civet007             ccACCAAACACAGAAGAT------TCCAAAACTGAgGAGAAAtCT---GTCGTACAGAAg
SARS_coronavirus_GZ50                 ccACCAAACACAGAAGAT------TCCAAAACTGAgGAGAAAtCT---GTCGTACAGAAg
SARS_coronavirus_Taiwan_TC1           ccACCAAACACAGAAGAT------TCCAAAACTGAgGAGAAAtCc---GTCGTACAGAAg
Bat_coronavirus_(BtCoV/273/2005)      AAtCCAAAattgGAAGAg------catAAAgCgaAAcAGccAgCT---G------AaAAA
BtRf-BetaCoV/HeB2013                  AAtCCAAAattgGAAGAg------cCtAAAgCgaAAcAGccAgCT---G------AaAAA

SARS_CORONAVIRUS                      CgcGaCGtgcTcgtaCgtggctTTggaGaCTcCGTgGAgGAGGTc------ttAtcaGAg
Severe_acute_respiratory_syndrom      aaacaaGATGatAAG---AAAATcAAaGCtTGtGTTGAAGAaGTTACaACAACtCTGGAA
SARS_coronavirus_civet007             CCTGTCGATGTgAAGCCAAAAATTAAGGCCTGCaTTGAtGAGGTTACCACAACACTGGAA
SARS_coronavirus_GZ50                 CCTGTCGATGTgAAGCCAAAAATTAAGGCCTGCaTTGAtGAGGTTACCACAACACTGGAA
SARS_coronavirus_Taiwan_TC1           CCTGTCGATGTgAAGCCAAAAATTAAGGCCTGCaTTGAtGAGGTTACCACAACACTGGAA
Bat_coronavirus_(BtCoV/273/2005)      CCTGTtGAcGTcAAaCCtAAAATTAAGGCtTGtGTcGAAGAGGTTACtACAACAtTGGAA
BtRf-BetaCoV/HeB2013                  CCTGTtGAcGTtAAaCCtAAAATTAAGGCtTGtGTcGAAGAGGTTACtACAACAtTGGAA

SARS_CORONAVIRUS                      GcAcgTcAacaTCTTA----AAgaTgGCaCTTGTggctTagTAgaAgTtGaAAaaggcGt
Severe_acute_respiratory_syndrom      GAAACTAAGTTcCTcACagAAAAcTTGtTacTtTaTatTGAcATtAATGGcAA-----tC
SARS_coronavirus_civet007             GAAACTAAGTTTCTTACCAAtAAgTTaCTCTTGTTTGCTGATATCAATGGTAA-----GC
SARS_coronavirus_GZ50                 GAAACTAAGTTTCTTACCAAtAAgTTaCTCTTGTTTGCTGATATCAATGGTAA-----GC
SARS_coronavirus_Taiwan_TC1           GAAACTAAGTTTCTTACCAAtAAgTTaCTCTTGTTTGCTGATATCAATGGTAA-----GC
Bat_coronavirus_(BtCoV/273/2005)      GAAACTAAacTTCTcACCcAAAAtcTGCTtcTtTTTGCTGATATCAATGGTAA-----aC
BtRf-BetaCoV/HeB2013                  GAAACTAAacTTCTTACtcgAAAccTGCTtcTtTTTGCTGATATCAATGGTAA-----aC

SARS_CORONAVIRUS                      TTTgCCtcaacttgaacagccctatgtgttcatcaaacgttCGGATgCTCgaAcTgcaCc
Severe_acute_respiratory_syndrom      TTcAtC-----------------------------------CaGATTCTgccAcTcTtgT
SARS_coronavirus_civet007             TTTACC-----------------------------------atGATTCTCAGAAcATGCT
SARS_coronavirus_GZ50                 TTTACC-----------------------------------atGATTCTCAGAAcATGCT
SARS_coronavirus_Taiwan_TC1           TTTACC-----------------------------------atGATTCTCAGAAcATGCT
Bat_coronavirus_(BtCoV/273/2005)      TTTACC-----------------------------------CGGATTCTCAGAATATGCT
BtRf-BetaCoV/HeB2013                  TTTACC-----------------------------------CGGATTCTCAGAATATGtT

SARS_CORONAVIRUS                      TcatGGTcAtGtTATGgtTgagCTgGtagcAGAActcGaAgGCAttcagTAcGGTcG---
Severe_acute_respiratory_syndrom      TAGtGacattGAcATcaCTTTCtTAa----AGAA---aGATGCtCCATATATaGTgGGTG
SARS_coronavirus_civet007             TAGAGGTGAAGATATGTCTTTCCTtG----AGAA---GGATGCACCtTAcATGGTAGGTG
SARS_coronavirus_GZ50                 TAGAGGTGAAGATATGTCTTTCCTtG----AGAA---GGATGCACCtTAcATGGTAGGTG
SARS_coronavirus_Taiwan_TC1           TAGAGGTGAAGATATGTCTTTCCTtG----AGAA---GGATGCACCtTAcATGGTAGGTG
Bat_coronavirus_(BtCoV/273/2005)      aAGAGGTGAAGAcATGTCTTTtCTAG----AaAA---GGAcGCACCATATgTaGTAGGTG
BtRf-BetaCoV/HeB2013                  aAGAGGTGAAGATATGTCTTTtCTAG----AaAA---GGAcGCACCATATgTaGTAGGTG

SARS_CORONAVIRUS                      ----------TAGTGGTGAgAcactTgGTGTccTtgTcCCTcaTgtgggcgAAAtaCcaG
Severe_acute_respiratory_syndrom      ATGTTgTtcaagagGGTGtTtTaACTgcTGTgGTtATACCTaCTA-----AAAAGGCTGG
SARS_coronavirus_civet007             ATGTTATCACTAGTGGTGATATCACTTGTGTTGTAATACCctCcA-----AAAAGaCTGG
SARS_coronavirus_GZ50                 ATGTTATCACTAGTGGTGATATCACTTGTGTTGTAATACCctCcA-----AAAAGGCTGG
SARS_coronavirus_Taiwan_TC1           ATGTTATCACTAGTGGTGATATCACTTGTGTTGTAATACCctCcA-----AAAAGGCTGG
Bat_coronavirus_(BtCoV/273/2005)      ATGTcATCACTAGTGGTGATATtACTTGTGTTaTAATACCTgCTA-----AgAAGGCTGG
BtRf-BetaCoV/HeB2013                  ATGTcATCACTAGTGGTGATATtACTTGTGTTaTAATACCTgCTA-----AgAAGGCTGG

SARS_CORONAVIRUS                      TGGC-tTACcGcAAgGtTCTtcttcgtAAGAaCggTaAtaAAgGaGCtgGTGGccATagt
Severe_acute_respiratory_syndrom      TGGCACTACTGAAATGCTag------CgAaAGCTTTGAgaAAAGTGCCAacaG--AcaAt
SARS_coronavirus_civet007             TGGCACTACTGAgATGCTCT------CAAGAGCTTTGAAGAAAGTGCCAGTtG--ATGAG
SARS_coronavirus_GZ50                 TGGCACTACTGAgATGCTCT------CAAGAGCTTTGAAGAAAGTGCCAGTtG--ATGAG
SARS_coronavirus_Taiwan_TC1           TGGCACTACTGAgATGCTCT------CAAGAGCTTTGAAGAAAGTGCCAGTtG--ATGAG
Bat_coronavirus_(BtCoV/273/2005)      TGGtACTACaGAAATGCTtg------CAAagGCaTTaAAGAAAGTGCCAGTGt--gTGAG
BtRf-BetaCoV/HeB2013                  TGGtACTACaGAAATGCTtg------CAAagGCaTTaAAGAAAGTGCCAGTGt--gTGAG

SARS_CORONAVIRUS                      TAcggcgccgatcTAaAgtCAttTgaCtTaGgCgAcGAgcttgGcaCTGaTccttatgaA
Severe_acute_respiratory_syndrom      TA-----------TATAACCACtTACCCgGGtCAgGGt----TtaaaTGGTT-------A
SARS_coronavirus_civet007             TA-----------TATAACCACGTACCCTGGACAAGGA----TGTGCTGGTT-------A
SARS_coronavirus_GZ50                 TA-----------TATAACCACGTACCCTGGACAAGGA----TGTGCTGGTT-------A
SARS_coronavirus_Taiwan_TC1           TA-----------TATAACCACGTACCCTGGACAAGGA----TGTGCTGGTT-------A
Bat_coronavirus_(BtCoV/273/2005)      TA-----------TATAACtACaTAtCCcGGACAAGGA----TGTGCTGGTT-------A
BtRf-BetaCoV/HeB2013                  TA-----------TATAACtACaTAtCCcGGACAAGGA----TGTGCTGGTT-------A

SARS_CORONAVIRUS                      gAtttTCaAGaAAaCTggaACactaaacatagcagtggtgttacccgtgaactcatgcgT
Severe_acute_respiratory_syndrom      cACtgTaGAGGAgGCaAAGAC--------------------------------------a
SARS_coronavirus_civet007             TACACTtGAGGAAGCTAAGAC--------------------------------------T
SARS_coronavirus_GZ50                 TACACTtGAGGAAGCTAAGAC--------------------------------------T
SARS_coronavirus_Taiwan_TC1           TACACTtGAGGAAGCTAAGAC--------------------------------------T
Bat_coronavirus_(BtCoV/273/2005)      TACACTCGAaGAAGCaAAGAC--------------------------------------T
BtRf-BetaCoV/HeB2013                  TACACTCGAaGAAGCaAAGAC--------------------------------------T

SARS_CORONAVIRUS                      GaGCTTAAcggAgGggcATacaCtcgcTATGtcgaTAacAaCTTCtGtgGC-CCTgATGg
Severe_acute_respiratory_syndrom      GtGCTTAAAAAgTGtAAAagTGCcTTTTAca----TtCTACCaTCtattatctCTAATG-
SARS_coronavirus_civet007             GCtCTTAAgAAATGCAAATCTGCATTTTATG----TACTACCTTCAGAAGCACCTAATG-
SARS_coronavirus_GZ50                 GCtCTTAAgAAATGCAAATCTGCATTTTATG----TACTACCTTCAGAAGCACCTAATG-
SARS_coronavirus_Taiwan_TC1           GCtCTTAAgAAATGCAAATCTGCATTTTATG----TACTACCTTCAGAAGCACCTAATG-
Bat_coronavirus_(BtCoV/273/2005)      GCGCTTAAAAggTGCAAATCTGCATgcTATG----TAtTACCTTCAaAAaCACCTAATG-
BtRf-BetaCoV/HeB2013                  GCGCTTAAAAggTGCAAATCTGCATTcTATG----TAtTACCTTCAaAAaCACCTAATG-

SARS_CORONAVIRUS                      ctaccctctTgAGtgcattaAAGAccTTCTAGcacgtgctggtaaagcttcatGcACTtT
Severe_acute_respiratory_syndrom      --------agAAG------cAAGAAATTCTtG---------------------GAACTGT
SARS_coronavirus_civet007             --------CTAAG------GAAGAgATTCTAG---------------------GAACTGT
SARS_coronavirus_GZ50                 --------CTAAG------GAAGAgATTCTAG---------------------GAACTGT
SARS_coronavirus_Taiwan_TC1           --------CTAAG------GAAGAgATTCTAG---------------------GAACTGT
Bat_coronavirus_(BtCoV/273/2005)      --------taAAa------GAtGAAATcCTtG---------------------GAACgGT
BtRf-BetaCoV/HeB2013                  --------taAAa------GAtGAAATcCTtG---------------------GAACgGT

SARS_CORONAVIRUS                      gTCcgaacaaCTGGAcTTtattgacacTaAGAGgggTGtaTaCTgcTGCcGtgaAcAtgA
Severe_acute_respiratory_syndrom      tTC-------tTGGAATT---------TGcGAGAAATGCTTGCaCATGCaGAAGAaACAc
SARS_coronavirus_civet007             ATC-------CTGGAATT---------TGAGAGAAATGCTTGCTCATGCTGAAGAGACAA
SARS_coronavirus_GZ50                 ATC-------CTGGAATT---------TGAGAGAAATGCTTGCTCATGCTGAAGAGACAA
SARS_coronavirus_Taiwan_TC1           ATC-------CTGGAATT---------TGAGAGAAATGCTTGCTCATGCTGAAGAGACAA
Bat_coronavirus_(BtCoV/273/2005)      gTC-------tTGGAATT---------TaAGgGAAATGCTTGCTCATGCTGAAGAGACAA
BtRf-BetaCoV/HeB2013                  gTC-------CTGGAATT---------TaAGgGAAATGCTTGCTCATGCTGAAGAGACAA

SARS_CORONAVIRUS                      GcAtgaaAtTGCtTg-gTaCAcGGaACGTTctgaaaAGAGCtATgAATtGCAgaCAcCtt
Severe_acute_respiratory_syndrom      GcAAATTAATGCCTgTcTGtgTGG-AaacT------AaAGCCAT-AgTttCAACtATaCA
SARS_coronavirus_civet007             GAAAATTAATGCCTATATGCATGG-AtGTT------AGAGCCAT-AATGGCAACCATCCA
SARS_coronavirus_GZ50                 GAAAATTAATGCCTATATGCATGG-AtGTT------AGAGCCAT-AATGGCAACCATCCA
SARS_coronavirus_Taiwan_TC1           GAAAATTAATGCCTATATGCATGG-AtGTT------AGAGCCAT-AATGGCAACCATCCA
Bat_coronavirus_(BtCoV/273/2005)      GAAAATTAATGCCTATtTGCATGG-ACaTT------AGAGCCAT-AATGGCtACaATCCA
BtRf-BetaCoV/HeB2013                  GAAAATTAATGCCTATtTGCATGG-ACaTT------AGAGCCAT-AATGGCtACaATCCA

SARS_CORONAVIRUS                      ttGaAAtTAaattggcAAAGaAATTtgAcatcTTCAAtgGGGAATgtccaAaTtTtGTaT
Severe_acute_respiratory_syndrom      gCGTAAaTA------TAAgGGtATTAAA---ATaCAAGAGGGtgTgGTTGAtTATGGTGc
SARS_coronavirus_civet007             ACGTAAGTA------TAAAGGAATTAAA---ATTCAAGAGGGcATCGTTGACTATGGTGT
SARS_coronavirus_GZ50                 ACGTAAGTA------TAAAGGAATTAAA---ATTCAAGAGGGcATCGTTGACTATGGTGT
SARS_coronavirus_Taiwan_TC1           ACGTAAGTA------TAAAGGAATTAAA---ATTCAAGAGGGcATCGTTGACTATGGTGT
Bat_coronavirus_(BtCoV/273/2005)      ACGTAAGTA------TAAAGGtATTAAg---ATTCAAGAaGGAATCGTTGACTATGGTGT
BtRf-BetaCoV/HeB2013                  ACGTAAGTA------TAAAGGtATTAAA---ATTCAAGAaGGAATCGTTGACTATGGTGT

SARS_CORONAVIRUS                      TtcccTtaaaTTccATAaTcaagactattcaaccaagggttgaaAagAAAaAGCtTGatG
Severe_acute_respiratory_syndrom      TaGATTtTaCTTTTAcACc-------------------------AGTAAAacaaCTGTAG
SARS_coronavirus_civet007             cCGATTCTTCTTTTATACT-------------------------AGTAAAGAGCCTGTAG
SARS_coronavirus_GZ50                 cCGATTCTTCTTTTATACT-------------------------AGTAAAGAGCCTGTAG
SARS_coronavirus_Taiwan_TC1           cCGATTCTTCTTTTATACT-------------------------AGTAAAGAGCCTGTAG
Bat_coronavirus_(BtCoV/273/2005)      TCGgTTCTTtTTcTATACT-------------------------AGcAAAGAGCCTGTAG
BtRf-BetaCoV/HeB2013                  TCGgTTCTTtTTcTATACT-------------------------AGcAAAGAaCCTGTAG

SARS_CORONAVIRUS                      gcTtTATgggTA-GAAttcGAtCTgTCTA--------tCcaGTtgCgtcaCCAAaTGa--
Severe_acute_respiratory_syndrom      CgTCacTTATcAacAcaCTtAACgaTCTAAATGAAaCtCTTGTtACAATGCCAcTTGGcT
SARS_coronavirus_civet007             CTTCTATTATTACGAAGCTGAACTCTCTAAATGAgCCGCTTGTCACAATGCCAATTGGTT
SARS_coronavirus_GZ50                 CTTCTATTATTACGAAGCTGAACTCTCTAAATGAgCCGCTTGTCACAATGCCAATTGGTT
SARS_coronavirus_Taiwan_TC1           CTTCTATTATTACGAAGCTGAACTCTCTAAATGAgCCGCTTGTCACAATGCCAATTGGTT
Bat_coronavirus_(BtCoV/273/2005)      CTTCTATTATTACaAAaCTcAAtTCTtTAAATGAACCaCTTaTCACAATGCCgATaGGTT
BtRf-BetaCoV/HeB2013                  CTTCTATTATTACaAAGCTcAAtTCTtTAAATGAACCaCTTaTCACAATGCCgATaGGTT

SARS_CORONAVIRUS                      ATGcaACcaaAtgTGccTTTcAaCTctcatgaagtgtgatcattgTGgtGAAaCTtCatG
Severe_acute_respiratory_syndrom      ATGTaAC---ACATGGcTTaAATtT--------------------gGAAGAAGCTGCtCG
SARS_coronavirus_civet007             ATGTGAC---ACATGGTTTTAATCT--------------------TGAAGAgGCTGCGCG
SARS_coronavirus_GZ50                 ATGTGAC---ACATGGTTTTAATCT--------------------TGAAGAgGCTGCGCG
SARS_coronavirus_Taiwan_TC1           ATGTGAC---ACATGGTTTTAATCT--------------------TGAAGAgGCTGCGCG
Bat_coronavirus_(BtCoV/273/2005)      ATGTGAC---ACATGGTTTTAAcCT--------------------gGAAGAAGCTGCGCG
BtRf-BetaCoV/HeB2013                  ATGTGAC---ACATGGTTTTAAcCT--------------------gGAAGAAGCTGCGCG

SARS_CORONAVIRUS                      gcagAcGgGcgaTTtTgTTAAAGCcaCTtgCGaAttttgtggcactgagaatttgactaa
Severe_acute_respiratory_syndrom      gTaTATGaG---aTCTCTcAAAGtgCCaGCtacA--------------------------
SARS_coronavirus_civet007             CTGTATGCG---TTCTCTTAAAGCTCCTGCCGTA--------------------------
SARS_coronavirus_GZ50                 CTGTATGCG---TTCTCTTAAAGCTCCTGCCGTA--------------------------
SARS_coronavirus_Taiwan_TC1           CTGTATGCG---TTCTCTTAAAGCTCCTGCCGTA--------------------------
Bat_coronavirus_(BtCoV/273/2005)      tTGTATGCG---cTCTCTTAAAGCTCCTGCtGTA--------------------------
BtRf-BetaCoV/HeB2013                  tTGTATGCG---cTCTCTTAAAGCTCCTGCtGTA--------------------------

SARS_CORONAVIRUS                      agaagGTGcCAcTActtgtggttacTtAcCcCaAaATGCTGTTgtTaAaATtTAtTGttT
Severe_acute_respiratory_syndrom      -----GTtTCtGTt-----------TCtTCACCtGATGCTGTTACa-gCgTATAATGGtT
SARS_coronavirus_civet007             -----GTGTCAGTA-----------TCATCACCAGATGCTGTTACT-ACATATAATGGAT
SARS_coronavirus_GZ50                 -----GTGTCAGTA-----------TCATCACCAGATGCTGTTACT-ACATATAATGGAT
SARS_coronavirus_Taiwan_TC1           -----GTGTCAGTA-----------TCATCACCAGATGCTGTTACT-ACATATAATGGAT
Bat_coronavirus_(BtCoV/273/2005)      -----GTGTCAGTg-----------TCtTCACCAGAcGCaGTTACT-ACATAcAATGGAT
BtRf-BetaCoV/HeB2013                  -----GTtTCAGTg-----------TCtTCACCAGAcGCaGTTACT-ACATAcAATGGAT

SARS_CORONAVIRUS                      AgaTttCcTaAT-ATtAcAaACtTgTGc----CctTTTGgtGAAgtttTTaaCgccaCca
Severe_acute_respiratory_syndrom      AtCTtACTTCtTCtTCtAAaACAcCTGAaGAACAtTTTaTtGAAACcATcTCaCTtGCTG
SARS_coronavirus_civet007             ACCTCACTTCgTCATCAAAGACATCTGAGGAgCACTTTGTAGAAACAgTTTCttTgGCTG
SARS_coronavirus_GZ50                 ACCTCACTTCgTCATCAAAGACATCTGAGGAgCACTTTGTAGAAACAgTTTCttTgGCTG
SARS_coronavirus_Taiwan_TC1           ACCTCACTTCgTCATCAAAGACATCTGAGGAgCACTTTGTAGAAACAgTTTCttTgGCTG
Bat_coronavirus_(BtCoV/273/2005)      ACCTCACaTCATCtTCAAAGACAcCTGAGGAACACTTcaTAGAgACcATcTCCCTtGCgG
BtRf-BetaCoV/HeB2013                  ACCTCACaTCATCtTCAAAGACAcCTGAGGAACACTTcaTAGAgACcATcTCCCTtGCgG

SARS_CORONAVIRUS                      GaTtT----GcatcTGtTtaTgcTtgGaACAG-GaAgAGAATcAGcaactGTGTTGctgA
Severe_acute_respiratory_syndrom      GtTCcTAtAaAGATTGGTCCTATTCtGGACAatcTACAcAAcTAG-----GTaTaG--AA
SARS_coronavirus_civet007             GCTCTTACAGAGATTGGTCCTATTCAGGACAGCGTACAGAgTTAG-----GTGTTG--AA
SARS_coronavirus_GZ50                 GCTCTTACAGAGATTGGTCCTATTCAGGACAGCGTACAGAgTTAG-----GTGTTG--AA
SARS_coronavirus_Taiwan_TC1           GCTCTTACAGAGATTGGTCCTATTCAGGACAGCGTACAGAgTTAG-----GTGTTG--AA
Bat_coronavirus_(BtCoV/273/2005)      GtaCgTAtAGAGAcTGGTCtTAcTCtGGACAaCGTACgGAATTAG-----GTGTTG--AA
BtRf-BetaCoV/HeB2013                  GtaCgTAtAGAGAcTGGTCtTAcTCtGGACAaCGTACAGAATTAG-----GTGTTG--AA

SARS_CORONAVIRUS                      TTatTctgtCcT----ATAtAATTccGcAtCAttttcCACTtTtaAGtGttatGgaGtGT
Severe_acute_respiratory_syndrom      TTTCTTAAGaGaGGTGATAAAAgTGTaTAttA-----CACT---agtAatCCtacCacaT
SARS_coronavirus_civet007             TTTCTTAAGCGTGGTGAcAAAATTGTGTACCA-----CACTCTGGAGAGCCCCGTCGAGT
SARS_coronavirus_GZ50                 TTTCTTAAGCGTGGTGAcAAAATTGTGTACCA-----CACTCTGGAGAGCCCCGTCGAGT
SARS_coronavirus_Taiwan_TC1           TTTCTTAAGCGTGGTGAcAAAATTGTGTACCA-----CACTCTGGAGAGCCCCGTCGAGT
Bat_coronavirus_(BtCoV/273/2005)      TTTCTcAAGCGTGGaGATAAgATTGTcTACCA-----CACTaTtGAaAaaCCCacCGAGT
BtRf-BetaCoV/HeB2013                  TTTCTcAAGCGTGGaGATAAgATTGTcTACCA-----CACTaTtGAaAaaCCCaTCGAaT

SARS_CORONAVIRUS                      cTCcTacTaAattaaAtGaTCTCT-gCTTtACtAAtgtctaTgcAGAtTCaTTTgTaatT
Severe_acute_respiratory_syndrom      TcCAcCTaGAtGGTGAaGTTaTCaCctTTGACAAtC-----TtAAGAcaCTTcTtTCttT
SARS_coronavirus_civet007             TTCATCTTGACGGTGAGGTTCTtTCACTTGACAAAC-----TAAAGAGTCTcTTATCCCT
SARS_coronavirus_GZ50                 TTCATCTTGACGGTGAGGTTCTtTCACTTGACAAAC-----TAAAGAGTCTcTTATCCCT
SARS_coronavirus_Taiwan_TC1           TTCATCTTGACGGTGAGGTTCTtTCACTTGACAAAC-----TAAAGAGTCTcTTATCCCT
Bat_coronavirus_(BtCoV/273/2005)      TctATCTTGACGGTGAGGTTCTCcCACTTGACAAgC-----TcAAGAGTCTTTTgTCtCT
BtRf-BetaCoV/HeB2013                  TTCATCTTGACGGTGAGGTTCTCcCACTTGACAAgC-----TcAAGAGTCTTTTgTCtCT

SARS_CORONAVIRUS                      agaGGtGaTgAAGtCagacAAAtcGcTCcagggcaAACTGgAaAgAttgCTgATtataAt
Severe_acute_respiratory_syndrom      GaGaGAaGTgAgGACTATtAAgGTGTTt-----ACAACaGTAGACAACAtTAAcCTCCAC
SARS_coronavirus_civet007             GCGGGAGGTTAAGACTATAAAAGTGTTC-----ACAACTGTgGACAACACTAATCTCCAC
SARS_coronavirus_GZ50                 GCGGGAGGTTAAGACTATAAAAGTGTTC-----ACAACTGTgGACAACACTAATCTCCAC
SARS_coronavirus_Taiwan_TC1           GCGGGAGGTTAAGACTATAAAAGTGTTC-----ACAACTGTgGACAACACTAATCTCCAC
Bat_coronavirus_(BtCoV/273/2005)      tCGtGAGGTTAAGACTATtAAAGTGTTt-----ACtACTGTAGACAAtACTAAcCTCCAC
BtRf-BetaCoV/HeB2013                  tCGtGAGGTTAAGACTATtAAAGTGTTt-----ACtACTGTAGACAAtACTAAcCTCCAC

SARS_CORONAVIRUS                      tataAAtTaccaGATgatTtTAcaggcTgcG--ttatAGcTTGGaatTCtAACAatCTTg
Severe_acute_respiratory_syndrom      ACgCAAgTTGTGGAcATGTCaATGACATATGGACAaCAGTTTGG---TCCAACtTAtTT-
SARS_coronavirus_civet007             ACACAgCTTGTGGATATGTCTATGACATATGGACAGCAGTTTGG---TCCAACATACTT-
SARS_coronavirus_GZ50                 ACACAgCTTGTGGATATGTCTATGACATATGGACAGCAGTTTGG---TCCAACATACTT-
SARS_coronavirus_Taiwan_TC1           ACACAgCTTGTGGATATGTCTATGACATATGGACAGCAGTTTGG---TCCAACATACTT-
Bat_coronavirus_(BtCoV/273/2005)      ACACAACTTGTGGAcATGTCTATGACATATGGACAGCAcTTTGG---TCCAACcTAtTT-
BtRf-BetaCoV/HeB2013                  ACACAACTTGTGGAcATGTCTgTGACATATGGACAGCAtTTcGG---TCCAACcTAtTT-

SARS_CORONAVIRUS                      attctaaGGtTGGTGgTaAttataattacctgtatagatTGTTtaggAAgTctAAtCTCA
Severe_acute_respiratory_syndrom      -------GGATGGaGCTGA--------------------TGTTACtAAAATaAAACCTCA
SARS_coronavirus_civet007             -------GGATGGTGCTGA--------------------TGTTACAAAAATTAAACCTCA
SARS_coronavirus_GZ50                 -------GGATGGTGCTGA--------------------TGTTACAAAAATTAAACCTCA
SARS_coronavirus_Taiwan_TC1           -------GGATGGTGCTGA--------------------TGTTACAAAAATTAAACCTCA
Bat_coronavirus_(BtCoV/273/2005)      -------GGAcGGTGCTGA--------------------TGTcACcAAggTTAAgCCTCA
BtRf-BetaCoV/HeB2013                  -------GGAcGGTGCTGA--------------------TGTcACtAAggTTAAgCCTCA

SARS_CORONAVIRUS                      --aAccTttTGAGaGagAtAtTTcaacTGaAatCTAtCagGccGgTagCACACcttGTAa
Severe_acute_respiratory_syndrom      TaattcaCATGAaGGTAAaACaTTtTaTGTt--tTACCTAa-TGATGACACtCTACGTgt
SARS_coronavirus_civet007             TGTAAATCATGAGGGTAAGACTTTCTTTGTA--CTACCTAG-TGATGACACACTACGTAG
SARS_coronavirus_GZ50                 TGTAAATCATGAGGGTAAGACTTTCTTTGTA--CTACCTAG-TGATGACACACTACGTAG
SARS_coronavirus_Taiwan_TC1           TGTAAATCATGAGGGTAAGACTTTCTTTGTA--CTACCTAG-TGATGACACACTACGTAG
Bat_coronavirus_(BtCoV/273/2005)      TGTtAATCATGAGGGTAAGACcTTCTTTGTA--CTACCTAG-TGATGACACACTgCGTAG
BtRf-BetaCoV/HeB2013                  TGTtAATCATGAGGGTAAGACTTTCTTTGTA--CTACCTAG-TGATGACACACTgCGTAG

SARS_CORONAVIRUS                      tggtgtTGAAGgTTTTaAtTgtTACttTcCTtTacaATcAtAtgGTTTcCaacccacTaa
Severe_acute_respiratory_syndrom      ------TGAgGCTTTTGAGTACTACCAcACaac-TGATcctA--GTTTTC------TgGG
SARS_coronavirus_civet007             ------TGAAGCTTTcGAGTACTACCATACTCT-TGATGAGA--GTTTTC------TTGG
SARS_coronavirus_GZ50                 ------TGAAGCTTTcGAGTACTACCATACTCT-TGATGAGA--GTTTTC------TTGG
SARS_coronavirus_Taiwan_TC1           ------TGAAGCTTTcGAGTACTACCATACTCT-TGATGAGA--GTTTTC------TTGG
Bat_coronavirus_(BtCoV/273/2005)      ------TGAAGCaTTTGAaTAtTACCAcACTCT-cGAcGAGA--GTTTTC------TTGG
BtRf-BetaCoV/HeB2013                  ------TGAAGCaTTTGAaTAtTACCAcACTCT-cGAcGAGA--GTTTTC------TcGG

SARS_CORONAVIRUS                      TgG-----TGTtgGtTaccAACCAtACAgAGtAgTaGtAcTTTCtTttgaacttctacat
Severe_acute_respiratory_syndrom      TAGGTACATGTCaGCaTTAAAtCACACtAAaAAgTGGAAATacCCa--------------
SARS_coronavirus_civet007             TAGGTACATGTCTGCgTTAAACCACACAAAGAAATGGAAATTTCCT--------------
SARS_coronavirus_GZ50                 TAGGTACATGTCTGCTTTAAACCACACAAAGAAATGGAAATTTCCT--------------
SARS_coronavirus_Taiwan_TC1           TAGGTACATGTCTGCTTTAAACCACACAAAGAAATGGAAATTTCCT--------------
Bat_coronavirus_(BtCoV/273/2005)      TAGaTACATGTCTGCTTTgAAtCACACAAAGAAATGGAAATTTCCT--------------
BtRf-BetaCoV/HeB2013                  TAGaTAtATGTCTGCTTTgAgtCACACAAAGAAATGGAAATTTCCT--------------

SARS_CORONAVIRUS                      gcaccagCAActGTTtGTGGaccTaaAAagTCtAcTAAtTtGGtTaAaAACAAaTG----
Severe_acute_respiratory_syndrom      -------CAA--GTTaaTGG---TTTAACTTCtATTAAATGGGCaGATAACAACTGTTAT
SARS_coronavirus_civet007             -------CAA--GTTGGTGG---TTTAACTTCAATTAAATGGGCTGATAACAAtTGTTAT
SARS_coronavirus_GZ50                 -------CAA--GTTGGTGG---TTTAACTTCAATTAAATGGGCTGATAACAAtTGTTAT
SARS_coronavirus_Taiwan_TC1           -------CAA--GTTGGTGG---TTTAACTTCAATTAAATGGGCTGATAACAAtTGTTAT
Bat_coronavirus_(BtCoV/273/2005)      -------CAA--GTTGGTGG---TTTAACTTCAATcAAATGGGCTGAcAAtAACTGTTAT
BtRf-BetaCoV/HeB2013                  -------CAA--GTTGGTGG---TTTAACTTCAATcAAATGGGCTGAcAAtAACTGTTAT

SARS_CORONAVIRUS                      -TGTCaA---TTTcA-----ACTTCAAtgGtTTaAcaggcacaggtgttcttactgAGTC
Severe_acute_respiratory_syndrom      cTtgCCAcTGcaTTgTTAaCACTcCAACAaATaGA---------------------gtTg
SARS_coronavirus_civet007             TTGTCtAGTGTTTTATTAGCACTTCAACAGATTGA---------------------AGTC
SARS_coronavirus_GZ50                 TTGTCtAGTGTTTTATTAGCACTTCAACAGcTTGA---------------------AGTC
SARS_coronavirus_Taiwan_TC1           TTGTCtAGTGTTTTATTAGCACTTCAACAGcTTGA---------------------AGTC
Bat_coronavirus_(BtCoV/273/2005)      TTGTCCAGTGTTTTATTAGCACTTCAgCAGATTGA---------------------gGTg
BtRf-BetaCoV/HeB2013                  TTGTCCAGTGTTTTATTAGCACTTCAgCAGATTGA---------------------gGTg

SARS_CORONAVIRUS                      tAAcaaAAaGtttCtGCctTTCcAacaatTTg--gcAGAGaCatTGCTGacacTaCTGaT
Severe_acute_respiratory_syndrom      AAgTTtAATcCACCtGCtCTaCAAGAtGCTTATTAcAGAGCaaGgGCTGGTGAaGCTGCT
SARS_coronavirus_civet007             AAATTCAATGCACCAGCACTTCAAGAGGCTTATTATAGAGCCCGTGCTGGTGATGCTGCT
SARS_coronavirus_GZ50                 AAATTCAATGCACCAGCACTTCAAGAGGCTTATTATAGAGCCCGTGCTGGTGATGCTGCT
SARS_coronavirus_Taiwan_TC1           AAATTCAATGCACCAGCACTTCAAGAGGCTTATTATAGAGCCCGTGCTGGTGATGCTGCT
Bat_coronavirus_(BtCoV/273/2005)      AAgTTtAATGCACCcGCACTaCAAGAGGCcTATTATAGAGCtCGTGCTGGTGATGCTGCT
BtRf-BetaCoV/HeB2013                  AAgTTtAATGCACCcGCACTaCAAGAaGCcTATTATAGAGCtCGTGCTGGTGATGCTGCT

SARS_CORONAVIRUS                      gctgTccGTGatcCACagAcACTtgaGaTTcttGacATtAcACcaT--GTtctTTTGGTG
Severe_acute_respiratory_syndrom      AACTTTTGTG---CACTtATctTa--GCcTACtGTAATAAgACaGTaGGTGAGTTaGGTG
SARS_coronavirus_civet007             AACTTTTGTG---CACTCATACTC--GCTTACAGTAATAAAACTGTTGGcGAGcTTGGTG
SARS_coronavirus_GZ50                 AACTTTTGTG---CACTCATACTC--GCTTACAGTAATAAAACTGTTGGcGAGcTTGGTG
SARS_coronavirus_Taiwan_TC1           AACTTTTGTG---CACTCATACTC--GCTTACAGTAATAAAACTGTTGGcGAGcTTGGTG
Bat_coronavirus_(BtCoV/273/2005)      AAtTTTTGTG---CgCTCATACTC--GCTTACAGTAATAAAACTGTgGGTGAGTTgGGTG
BtRf-BetaCoV/HeB2013                  AAtTTTTGTG---CgCTCATACTt--GCTTACAGTAATAAAACTGTgGGTGAGTTgGGTG

SARS_CORONAVIRUS                      gTGTCAGtgttataacaccaggaacAaAtACTtctAaCCAggttgctgtTCTTtatCAGg
Severe_acute_respiratory_syndrom      ATGTtAG------------------AGAAACaATGAgttA---------ctTgtTtCAaC
SARS_coronavirus_civet007             ATGTCAG------------------AGAAACTATGACCCA---------TCTTCTACAGC
SARS_coronavirus_GZ50                 ATGTCAG------------------AGAAACTATGACCCA---------TCTTCTACAGC
SARS_coronavirus_Taiwan_TC1           ATGTCAG------------------AGAAACTATGACCCA---------TCTTCTACAGC
Bat_coronavirus_(BtCoV/273/2005)      ATGTtAG------------------gGAAACTATGACCCA---------TCTTCTACAaC
BtRf-BetaCoV/HeB2013                  ATGTtAG------------------gGAAACTATGACCCA---------TCTTCTACAaC

SARS_CORONAVIRUS                      gTGtTAA--------CTGCAcAG-aAGTcCcTgtTGc------TAttCATgcaGaTCAac
Severe_acute_respiratory_syndrom      ATGCcAATTTaGAtTCTtgcAAaAGAGTctTgAAcGTGGTGTGTAAAacTTGTGGaCAac
SARS_coronavirus_civet007             ATGCTAATTTGGAATCTGCAAAGcGAGTTCTTAATGTGGTGTGTAAACATTGTGGTCAGA
SARS_coronavirus_GZ50                 ATGCTAATTTGGAATCTGCAAAGcGAGTTCTTAATGTGGTGTGTAAACATTGTGGTCAGA
SARS_coronavirus_Taiwan_TC1           ATGCTAATTTGGAATCTGCAAAGcGAGTTCTTAATGTGGTGTGTAAACATTGTGGTCAGA
Bat_coronavirus_(BtCoV/273/2005)      ATGCcAAcTTGGAATCcGCtAAGAGgGTTCTTAATtTGGTGTGTAAgCATTGcGGaCAGA
BtRf-BetaCoV/HeB2013                  ATGCcAAcTTGGAATtcGCtAAGAGgGTTCTTAATtTGGTGTGTAAgCATTGcGGaCAGA

SARS_CORONAVIRUS                      ttACTcCTA-CTTggCGtGTtTAttctacAgGtTcTaATGTttttcaaAcAcGtGcAggC
Severe_acute_respiratory_syndrom      AgcagACaACCcTtAaGGGTGTAG-----AAGCTGTtATGT-------AcATGGGcACaC
SARS_coronavirus_civet007             AAACTACTACCTTAACGGGTGTAG-----AAGCTGTGATGT-------ATATGGGTACTC
SARS_coronavirus_GZ50                 AAACTACTACCTTAACGGGTGTAG-----AAGCTGTGATGT-------ATATGGGTACTC
SARS_coronavirus_Taiwan_TC1           AAACTACTACCTTAACGGGTGTAG-----AAGCTGTGATGT-------ATATGGGTACTC
Bat_coronavirus_(BtCoV/273/2005)      AAACTACcACCTTAAtGGGTGTAG-----AAGCcGTGATGT-------ATATGGGTACTt
BtRf-BetaCoV/HeB2013                  AAACTACcACCTTAACGGGTGTAG-----AAGCcGTGATGT-------AcATGGGTACTt

SARS_CORONAVIRUS                      TgTtTaAT-AgggGCTgAAcA----TGTcaaCAactCATaTGaGTGTGac----------
Severe_acute_respiratory_syndrom      TtTCTTATGAacAatTTAAGAaAGGTGTTcagATaCCtTGTacGTGTGGTaaacAaGCTA
SARS_coronavirus_civet007             TATCTTATGATAAtCTTAAGACAGGTGTTTCCATTCCATGTGTGTGTGGTCGTGATGCTA
SARS_coronavirus_GZ50                 TATCTTATGATAAtCTTAAGACAGGTGTTTCCATTCCATGTGTGTGTGGTCGTGATGCTA
SARS_coronavirus_Taiwan_TC1           TATCTTATGATAAtCTTAAGACAGGTGTTTCCATTCCATGTGTGTGTGGTCGTGATGCTA
Bat_coronavirus_(BtCoV/273/2005)      TgTCTTATGATgAGCTTAAGgCAGGTGTTTCaATTCCtTGTGTGTGTGGTCGTGATGCTA
BtRf-BetaCoV/HeB2013                  TgTCTTATGATgAGCTTAAGACAGGTGTTTCaATTCCtTGTGTGTGTGGTCGTGgTGCTA

SARS_CORONAVIRUS                      ----ATAcCcAtTggtgCAgGtaTaTgCgcTaGTTATcAgactcagACtAattctcCtcG
Severe_acute_respiratory_syndrom      CAaAATATCTAGTACAACAgGAGTCacCTTTTGTTATGATGTCaGCACCA------CCTG
SARS_coronavirus_civet007             CACAATATCTAGTACAACAAGAGTCTTCTTTTGTTATGATGTCTGCACCA------CCTG
SARS_coronavirus_GZ50                 CACAATATCTAGTACAACAAGAGTCTTCTTTTGTTATGATGTCTGCACCA------CCTG
SARS_coronavirus_Taiwan_TC1           CACAATATCTAGTACAACAAGAGTCTTCTTTTGTTATGATGTCTGCACCA------CCTG
Bat_coronavirus_(BtCoV/273/2005)      CACAATATCTAGTACAACAAGAGTCTTCTTTTGTTATGATGTCTGCACCt------CCTG
BtRf-BetaCoV/HeB2013                  CACAATATCTAGTACAACAAGAGTCTTCTTTTGTTATGATGTCTGCACCt------CCTG

SARS_CORONAVIRUS                      gcGgGcAcgtAgTgtAGCtAGtcA-------ATccatcAtTGccTACACTa-----TgTC
Severe_acute_respiratory_syndrom      CTcAGTATgAAcTtaAGCAtGGTACATTtactTGTGCtAgTGAGTACACTGGTAAtTAcC
SARS_coronavirus_civet007             CTGAGTATAAATTACAGCAAGGTACATTCTTATGTGCgAATGAGTACACTGGTAACTATC
SARS_coronavirus_GZ50                 CTGAGTATAAATTACAGCAAGGTACATTCTTATGTGCgAATGAGTACACTGGTAACTATC
SARS_coronavirus_Taiwan_TC1           CTGAGTATAAATTACAGCAAGGTACATTCTTATGTGCgAATGAGTACACTGGTAACTATC
Bat_coronavirus_(BtCoV/273/2005)      CTGAGTAcAAgTTgCAGCAgGGTACATTtTTATGcGCtAATGAGTACACTGGTAAtTATC
BtRf-BetaCoV/HeB2013                  CTGAGTAcAAgTTgCAGCAgGGTACATTtTTATGcGCtAATGAGTACACTGGTAAtTATC

SARS_CORONAVIRUS                      AcTtgGtgCAgaAaAtTCAgtTgctTaCTctaatAACtCTatTgcCaTAcccACaaAttT
Severe_acute_respiratory_syndrom      AGTGTGGTCAcTAtAaaCATATAACTtCTAAaGAAACttT-gTATtGcATAGACGGtGCT
SARS_coronavirus_civet007             AGTGTGGTCATTACACTCATATAACTGCTAAGGAgACCCT-CTATCGTATtGACGGAGCT
SARS_coronavirus_GZ50                 AGTGTGGTCATTACACTCATATAACTGCTAAGGAgACCCT-CTATCGTATtGACGGAGCT
SARS_coronavirus_Taiwan_TC1           AGTGTGGTCATTACACTCATATAACTGCTAAGGAgACCCT-CTATCGTATtGACGGAGCT
Bat_coronavirus_(BtCoV/273/2005)      AGTGTGGTCATTACACTCAcATAACTGCcAAGGAAACgCT-CTATCGTATAGAtGGAGCT
BtRf-BetaCoV/HeB2013                  AGTGTGGTCATTAtACTCATATAACTGCcAAGGAAACgCT-CTATCGTATAGAtGGAGCT

SARS_CORONAVIRUS                      tACtaTtagtgttaccACAgAaATtctAccAGTgtctAtGACCaAGacAtcagTagaTTg
Severe_acute_respiratory_syndrom      ttaCTT----------ACAAAGtccTCA-GAaTACAAAGGtCC-taTtACgGATGTTTTC
SARS_coronavirus_civet007             CACCTT----------ACAAAGATGTCA-GAGTACAAAGGACC-AGTGACTGATGTTTTC
SARS_coronavirus_GZ50                 CACCTT----------ACAAAGATGTCA-GAGTACAAAGGACC-AGTGACTGATGTTTTC
SARS_coronavirus_Taiwan_TC1           CACCTT----------ACAAAGATGTCA-GAGTACAAAGGACC-AGTGACTGATGTTTTC
Bat_coronavirus_(BtCoV/273/2005)      CACCTT----------ACAAAaATGTCA-GAaTAtAAAGGACC-AGTGACTGATGTTTTC
BtRf-BetaCoV/HeB2013                  CACCTT----------ACAAAaATGTCA-GAaTAtAAAGGACC-AGTGACTGATGTTTTC

SARS_CORONAVIRUS                      TACAAtG-tACATttgtggtgaTTcaACTgaAtgCAgCAAtCtTtTGTtGcA------at
Severe_acute_respiratory_syndrom      TACAAAGAAAacag--------TTACACaACAACCATaAAaCCaGTtaCtTATAAAtTgG
SARS_coronavirus_civet007             TACAAgGAAACATC--------cTACACTACAACCATCAAGCCTGTGTCGTATAAACTCG
SARS_coronavirus_GZ50                 TACAAgGAAACATC--------TTACACTACAACCATCAAGCCTGTGTCGTATAAACTCG
SARS_coronavirus_Taiwan_TC1           TACAAgGAAACATC--------TTACACTACAACCATCAAGCCTGTGTCGTATAAACTCG
Bat_coronavirus_(BtCoV/273/2005)      TAtAAAGAAACATC--------TTACACTACAACtATtAAGCCTGTGTCaTAcAAACTCG
BtRf-BetaCoV/HeB2013                  TAtAAAGAAACATC--------TTACACTACAACtATtAAGCCTGTGTCaTATAAACTCG

SARS_CORONAVIRUS                      ATGGcagTttTTgtACAcA-ATTaAACC------------GTgcTtTAActgGaATAgct
Severe_acute_respiratory_syndrom      ATGGtGTTgtTTgtACAGAaATTGAcCCtAAgTTGGAcaatTATTATAAgAAaGAcAATt
SARS_coronavirus_civet007             ATGGAGTTACTTACACAGAGATTGAACCAAAATTGGATGGGTATTATAAAAAGGATAATG
SARS_coronavirus_GZ50                 ATGGAGTTACTTACACAGAGATTGAACCAAAATTGGATGGGTATTATAAAAAGGATAATG
SARS_coronavirus_Taiwan_TC1           ATGGAGTTACTTACACAGAGATTGAACCAAAATTGGATGGGTATTATAAAAAGGATAATG
Bat_coronavirus_(BtCoV/273/2005)      AcGGAGTTACTTACACAGAGATTGAACCtAAATTaGATGGGTATTATAAAAAGGATAATG
BtRf-BetaCoV/HeB2013                  AcGGAGTTACTTACACAGAGATTGAACCtAAATTaGATGGGTATTATAAAAAGGATAATG

SARS_CORONAVIRUS                      gTTgaACaAgACAaAaacaCCcAagaAgtTTtTgCaCAAgTCaaacaaatttacaAAaCA
Severe_acute_respiratory_syndrom      CTT--AtTtCACAGAGCAaCCaATtGAtCTTGTAC-CAAacC-------------AACCA
SARS_coronavirus_civet007             CTT--ACTAtACAGAGCAGCCTATAGACCTTGTAC-CAACTC-------------AACCA
SARS_coronavirus_GZ50                 CTT--ACTAtACAGAGCAGCCTATAGACCTTGTAC-CAACTC-------------AACCA
SARS_coronavirus_Taiwan_TC1           CTT--ACTAtACAGAGCAGCCTATAGACCTTGTAC-CAACTC-------------AACCA
Bat_coronavirus_(BtCoV/273/2005)      CTT--ACTACACtGAGCAGCCTATtGAtCTTGTgC-CAACTC-------------AACCA
BtRf-BetaCoV/HeB2013                  CTT--ACTACACtGAGCAGCCTATtGAtCTTGTgC-CAACTC-------------AACCA

SARS_CORONAVIRUS                      ccACCAAtTaaagaTTTTGgTggTTTtAAttTttcacaaatattacCAgATccatcAAaA
Severe_acute_respiratory_syndrom      TatCCAAAcGCaAGcTTcGATAATTTtAAgtT--------------tgtATGTgaTAAtA
SARS_coronavirus_civet007             TTACCAAATGCGAGTTTTGATAATTTCAAACT--------------CACATGTTCTAACA
SARS_coronavirus_GZ50                 TTACCAAATGCGAGTTTTGATAATTTCAAACT--------------CACATGTTCTAACA
SARS_coronavirus_Taiwan_TC1           TTACCAAATGCGAGTTTTGATAATTTCAAACT--------------CACATGTTCTAACA
Bat_coronavirus_(BtCoV/273/2005)      TTgCCAAATGCGAGTTTTGAcAATTTCAAACT--------------CACATGcTCTAACA
BtRf-BetaCoV/HeB2013                  TTgCCAAATGCGAGTTTTGAcAATTTCAAACT--------------CACATGcTCTAACA

SARS_CORONAVIRUS                      CcAAgcaagaggtcATTTatTGAaGATcTActtttcAAcaAAgTGACActtgcagatgct
Severe_acute_respiratory_syndrom      tcAA----------ATTTGCTGATGATTTA------AAcCAgtTaACt------------
SARS_coronavirus_civet007             CAAA----------ATTTGCTGATGATTTA------AATCAAATGACA------------
SARS_coronavirus_GZ50                 CAAA----------ATTTGCTGATGATTTA------AATCAAATGACA------------
SARS_coronavirus_Taiwan_TC1           CAAA----------ATTTGCTGATGATTTA------AATCAAATGACA------------
Bat_coronavirus_(BtCoV/273/2005)      ttAA----------gTTTGCTGATGAccTt------AATCAAATGACA------------
BtRf-BetaCoV/HeB2013                  ttAA----------gTTTGCTGATGAccTt------AATCAAATGACA------------

SARS_CORONAVIRUS                      GGCTTCAtcAAaCaAtatggtgattgccttggtgatattGCTgCtaGAGAcCTcATtTGt
Severe_acute_respiratory_syndrom      GGtTatAAgAAaCCt------------------------GCTTCAaGAGAGCT-taaaG-
SARS_coronavirus_civet007             GGCTTCAcAAAGCCA------------------------GCTTCACGAGAGCT-ATCTG-
SARS_coronavirus_GZ50                 GGCTTCAcAAAGCCA------------------------GCTTCACGAGAGCT-ATCTG-
SARS_coronavirus_Taiwan_TC1           GGCTTCAcAAAGCCA------------------------GCTTCACGAGAGCT-ATCTG-
Bat_coronavirus_(BtCoV/273/2005)      GGCTTtAAAAAGCCA------------------------GCTTCACGtGAGCT-ATCTG-
BtRf-BetaCoV/HeB2013                  GGCTTtAAAAAGCCA------------------------GCTTCACGtGAGCT-ATCTG-

SARS_CORONAVIRUS                      gcacaaaagtttaacggccTtACtgTtTTgCCAcctTTGctcacaGATGaAaTGatTgcT
Severe_acute_respiratory_syndrom      -------------------TtACATTtTTCCCtGACTTaAATGGtGATGTgGTGGCTATT
SARS_coronavirus_civet007             -------------------TCACATTCTTCCCAGACTTGAATGGCGATGTAGTGGCTATT
SARS_coronavirus_GZ50                 -------------------TCACATTCTTCCCAGACTTGAATGGCGATGTAGTGGCTATT
SARS_coronavirus_Taiwan_TC1           -------------------TCACATTCTTCCCAGACTTGAATGGCGATGTAGTGGCTATT
Bat_coronavirus_(BtCoV/273/2005)      -------------------TCACATTCTTtCCAGACTTGAATGGCGATGTAGTGGCTATT
BtRf-BetaCoV/HeB2013                  -------------------TCACATTCTTtCCAGACTTGAATGGCGATGTAGTGGCTATT

SARS_CORONAVIRUS                      cAaTAcActtctgCACTgTT-AGCGgGTacaatcacttctggttggaccTTtggtgcAGG
Severe_acute_respiratory_syndrom      GAtTATA----aACACTAcaCAcCctcT---------------------TTtAAGAAAGG
SARS_coronavirus_civet007             GACTATA----GACACTATTCAGCGAGT---------------------TTCAAGAAAGG
SARS_coronavirus_GZ50                 GACTATA----GACACTATTCAGCGAGT---------------------TTCAAGAAAGG
SARS_coronavirus_Taiwan_TC1           GACTATA----GACACTATTCAGCGAGT---------------------TTCAAGAAAGG
Bat_coronavirus_(BtCoV/273/2005)      GACTATA----GACAtTAcTCAGCGAGT---------------------TTCAAGAAAGG
BtRf-BetaCoV/HeB2013                  GACTATA----GACAtTAcTCAGCGAGT---------------------TTCAAGAAAGG

SARS_CORONAVIRUS                      TGCTgcATTA---CAaAtaCCAtTTGcTatGCAaAtggcttataggtTTAAtggtatTgg
Severe_acute_respiratory_syndrom      aGCTAAATTgtTACATAAaCCtATTGTTTGGCAtg------------TTAACaAtGCaAC
SARS_coronavirus_civet007             TGCTAAATTACTgCATAAGCCAATTGTTTGGCACA------------TTAACCAGGCTAC
SARS_coronavirus_GZ50                 TGCTAAATTACTgCATAAGCCAATTGTTTGGCACA------------TTAACCAGGCTAC
SARS_coronavirus_Taiwan_TC1           TGCTAAATTACTgCATAAGCCAATTGTTTGGCACA------------TTAACCAGGCTAC
Bat_coronavirus_(BtCoV/273/2005)      TGCTAAAcTgCTACATAAGCCAATTaTTTGGCAtA------------TcAAtCAGaCTAC
BtRf-BetaCoV/HeB2013                  TGCTAAAcTgCTACATAAGCCAATTaTTTGGCAtA------------TcAAtCAGaCTAC

SARS_CORONAVIRUS                      AgttAcAcAgAAtGTTCtctatgagAACCAAAaAtTgatTGccaaccaatTTaAtagTGc
Severe_acute_respiratory_syndrom      tAAtA-AagCcACGTat-------AAACCAAAtACcTGGTG---------TaTACGTTGT
SARS_coronavirus_civet007             AAcCA-AGACAACGTTC-------AAACCAAACACTTGGTG---------TTTACGTTGT
SARS_coronavirus_GZ50                 AAcCA-AGACAACGTTC-------AAACCAAACACTTGGTG---------TTTACGTTGT
SARS_coronavirus_Taiwan_TC1           AAcCA-AGACAACGTTC-------AAACCAAACACTTGGTG---------TTTACGTTGT
Bat_coronavirus_(BtCoV/273/2005)      AAACA-AGACAACtTaC-------AAgCCAAACAtTTGGTG---------TTTACGTTGT
BtRf-BetaCoV/HeB2013                  AAACA-AGACAACtTaC-------AAgCCAAACACTTGGTG---------TTTACGTTGT

SARS_CORONAVIRUS                      taTTGGca---AAAttCAagActcACTTtcttccacagCAAgTgCAcTTGgAaaaCTtcA
Severe_acute_respiratory_syndrom      CTTTGGAGcACAAAaCCAGTtGAAACaT----------CAAATTCgTTTGAtGTaCTGaA
SARS_coronavirus_civet007             CTTTGGAGTACAAAGCCAGTAGAtACTT----------CAAATTCATTTGAAGTTCTGGc
SARS_coronavirus_GZ50                 CTTTGGAGTACAAAGCCAGTAGAtACTT----------CAAATTCATTTGAAGTTCTGGc
SARS_coronavirus_Taiwan_TC1           CTTTGGAGTACAAAGCCAGTAGAtACTT----------CAAATTCATTTGAAGTTCTGGc
Bat_coronavirus_(BtCoV/273/2005)      CTTTGGAGTACAAAGCCAGTtGAAACcT----------CAAATTCATTTGAAGTTCTGGA
BtRf-BetaCoV/HeB2013                  CTTTGGAGTACAAAGCCAGTtGAAACcT----------CAAATTCATTTGAAGTTCTGGA

SARS_CORONAVIRUS                      AGatGtgGtCAacCAA--AATGcACAAgCTTtaaacacGCTTGTtAA-----ACAACttA
Severe_acute_respiratory_syndrom      gtcAGAgGACgCgCAgGGAATGGAtAATCTT-------GCcTGcGAAgaTCtAaAACCAg
SARS_coronavirus_civet007             AGTAGAAGACACACAAGGAATGGACAATCTT-------GCTTGTGAAAGTCAACAACCcA
SARS_coronavirus_GZ50                 AGTAGAAGACACACAAGGAATGGACAATCTT-------GCTTGTGAAAGTCAACAACCcA
SARS_coronavirus_Taiwan_TC1           AGTAGAAGACACACAAGGAATGGACAATCTT-------GCTTGTGAAAGTCAACAACCcA
Bat_coronavirus_(BtCoV/273/2005)      AGTAGAAGACACACAAGGAATGGAtAATCTT-------GCTTGTGAAAGcCAACcACtAA
BtRf-BetaCoV/HeB2013                  AGTAGAAGgCACACAAGGAATGGAtAATCTT-------GCTTGTGAAAGcCAACcACCAA

SARS_CORONAVIRUS                      gCTCcaAttttggtgcaatttcAAGTgtTttAAAtgatATCCTttCAcgtcttgacaaag
Severe_acute_respiratory_syndrom      tCTCTGAAG-------------AAGTAGTGGAAA----ATCCTACCAT------------
SARS_coronavirus_civet007             CCTCTGAAG-------------AAGTAGTGGAAA----ATCCTACCAT------------
SARS_coronavirus_GZ50                 CCTCTGAAG-------------AAGTAGTGGAAA----ATCCTACCAT------------
SARS_coronavirus_Taiwan_TC1           CCTCTGAAG-------------AAGTAGTGGAAA----ATCCTACCAT------------
Bat_coronavirus_(BtCoV/273/2005)      CCTCTGAAG-------------AAGTAGTGGAAA----ATCCTACCgT------------
BtRf-BetaCoV/HeB2013                  CCTCTGAAG-------------AAGTAGTGGAAA----ATCCTACCgT------------

SARS_CORONAVIRUS                      ttgaggCtGAAGtgcaAAtTgATAGgtTGaTcACagGcAgACTtCaaAgtTTGcAGaCAt
Severe_acute_respiratory_syndrom      -----ACAGAAa---GAcGTtcTtGAGTG-TaAtGTGAAAACTACCGAAGTTGTAGGag-
SARS_coronavirus_civet007             -----ACAGAAG---GAAGTCATAGAGTG-TGACGTGAAAACTACCGAAGTTGTAGGCA-
SARS_coronavirus_GZ50                 -----ACAGAAG---GAAGTCATAGAGTG-TGACGTGAAAACTACCGAAGTTGTAGGCA-
SARS_coronavirus_Taiwan_TC1           -----ACAGAAG---GAAGTCATAGAGTG-TGACGTGAAAACTACCGAAGTTGTAGGCA-
Bat_coronavirus_(BtCoV/273/2005)      -----ACAGAAG---GAAGTaATAGAGTG-TGACGTGAAAACTACCGAAGTTGTAGGCA-
BtRf-BetaCoV/HeB2013                  -----ACAGAAG---GAAGTaATAGAGTG-TGACGTGAAAAtTACCGAAGTTGTAGGCA-

SARS_CORONAVIRUS                      ATGTgActcaacaatTAaTTAgAgCtgCAGaaatcagagcttctgctaatcttgctgctA
Severe_acute_respiratory_syndrom      AcaTtA---------TACTTAAACCAgCAa-----------------------------A
SARS_coronavirus_civet007             ATGTCA---------TACTTAAACCATCAG-----------------------------A
SARS_coronavirus_GZ50                 ATGTCA---------TACTTAAACCATCAG-----------------------------A
SARS_coronavirus_Taiwan_TC1           ATGTCA---------TACTTAAACCATCAG-----------------------------A
Bat_coronavirus_(BtCoV/273/2005)      ATGTCA---------TACTaAAACCATCAG-----------------------------A
BtRf-BetaCoV/HeB2013                  ATGTCA---------TACTaAAACCATCAG-----------------------------A

SARS_CORONAVIRUS                      ctAAaaTGTCAgAGTgtgtacttggACaatcaAaAAGAGTTgatTttTGtGGaaagggct
Severe_acute_respiratory_syndrom      TaAtaGTtTaAAAaT---------tAC-----AgAAGAGgTtGGcCAcacaG--------
SARS_coronavirus_civet007             TGAAGGTGTtAAAGT---------AAC-----ACAAGAGTTAGGTCATGAGG--------
SARS_coronavirus_GZ50                 TGAAGGTGTtAAAGT---------AAC-----ACAAGAGTTAGGTCATGAGG--------
SARS_coronavirus_Taiwan_TC1           TGAAGGTGTtAAAGT---------AAC-----ACAAGAGTTAGGTCATGAGG--------
Bat_coronavirus_(BtCoV/273/2005)      cGAAGGTGTCAAAGT---------gAC-----ACAAGAGTTAGGcCATGAaG--------
BtRf-BetaCoV/HeB2013                  cGAAGGTGTCAAAGT---------gAC-----ACAAGAGTTAGGcCATGAaG--------

SARS_CORONAVIRUS                      atcATCTTATGtccttccctcagtcaGCacCTcATgGTGtAgtcTtCttGCATgtgactt
Severe_acute_respiratory_syndrom      ---ATCTaATG---------------GCTGCTTAT-GTaGAcAATtCtAGtcT-------
SARS_coronavirus_civet007             ---ATCTTATG---------------GCTGCTTAT-GTGGAAAAcACAAGCAT-------
SARS_coronavirus_GZ50                 ---ATCTTATG---------------GCTGCTTAT-GTGGAAAAcACAAGCAT-------
SARS_coronavirus_Taiwan_TC1           ---ATCTTATG---------------GCTGCTTAT-GTGGAAAAcACAAGCAT-------
Bat_coronavirus_(BtCoV/273/2005)      ---ATCTaATG---------------GCTGCTTAT-GTaGAAAATACAAGCAT-------
BtRf-BetaCoV/HeB2013                  ---ATCTaATG---------------GCTGCTTAT-GTaGAAAATACAAGCAT-------

SARS_CORONAVIRUS                      atgtccctgcACaAgaAAagAACtTcAcaActgctcCTgcCAtTtGtCaT-GaTggAAAA
Severe_acute_respiratory_syndrom      ---------TACtATTAAGAAACCTAATGA-----atTaTCtagAGtaTTAGGTTTgAAA
SARS_coronavirus_civet007             ---------TACCATTAAGAAACCTAATGA-----GCTTTCACTAGCCTTAGGTTTAAAA
SARS_coronavirus_GZ50                 ---------TACCATTAAGAAACCTAATGA-----GCTTTCACTAGCCTTAGGTTTAAAA
SARS_coronavirus_Taiwan_TC1           ---------TACCATTAAGAAACCTAATGA-----GCTTTCACTAGCCTTAGGTTTAAAA
Bat_coronavirus_(BtCoV/273/2005)      ---------TACCATTAAGAAACCTAATGA-----GCTcTCgtTgGCCTTAGGTTTAAAA
BtRf-BetaCoV/HeB2013                  ---------TACCATTAAGAAACCTAATGA-----GCTcTCgtTgGCCTTAGGTTTAAAA

SARS_CORONAVIRUS                      gCACactttcCTCgTgaaGGTgTcttTGtttcaAATgGcacaCacTGGtttgtaacacAa
Severe_acute_respiratory_syndrom      ACcCTTGCtACTCAT---GGTtTaGCTGCtgTTAATAGTGTCCCTTGG----------ga
SARS_coronavirus_civet007             ACAaTTGCCACTCAT---GGTATTGCTGCAATTAATAGTGTtCCTTGG----------AG
SARS_coronavirus_GZ50                 ACAaTTGCCACTCAT---GGTATTGCTGCAATTAATAGTGTtCCTTGG----------AG
SARS_coronavirus_Taiwan_TC1           ACAaTTGCCACTCAT---GGTATTGCTGCAATTAATAGTGTtCCTTGG----------AG
Bat_coronavirus_(BtCoV/273/2005)      ACACTTGCCACTCAT---GGTgcTGCTGCAATcAATAGTGTCCCTTGG----------AG
BtRf-BetaCoV/HeB2013                  ACACTTGCCACTCAT---GGTgcTGCTGCAATcAATAGTGTCCCgTGG----------AG

SARS_CORONAVIRUS                      aggAATTTTtatgaAccaCAAAtCATTaCTAcaGACAAcacatttgtgtctggtaactgt
Severe_acute_respiratory_syndrom      TActATagctaaTTATGctAAgCCtTTtCT--taACAA----------------------
SARS_coronavirus_civet007             TAAAATTTTGGCTTATGTCAAACCATTCtTA-GGACA-----------------------
SARS_coronavirus_GZ50                 TAAAATTTTGGCTTATGTCAAACCATTCtTA-GGACA-----------------------
SARS_coronavirus_Taiwan_TC1           TAAAATTTTGGCTTATGTCAAACCATTCtTA-GGACA-----------------------
Bat_coronavirus_(BtCoV/273/2005)      TAAggTTTTGGCTTATGTtAAgCCtTTtCTA-GGACA-----------------------
BtRf-BetaCoV/HeB2013                  TAAggTTTTGGCTTATGTtAAgCCtTTtCTA-GGACA-----------------------

SARS_CORONAVIRUS                      gatgttgtAatAGgAATTgtcaACAACAcagtttatgatcctttgCAAcCTGaaTTAgac
Severe_acute_respiratory_syndrom      --------AGttGttAgT----ACAACta----------------CtAACataGTTA---
SARS_coronavirus_civet007             --------AGCAGCAATT----ACAACAT----------------CAAAtTGCGcTA---
SARS_coronavirus_GZ50                 --------AGCAGCAATT----ACAACAT----------------CAAAtTGCGcTA---
SARS_coronavirus_Taiwan_TC1           --------AGCAGCAATT----ACAACAT----------------CAAAtTGCGcTA---
Bat_coronavirus_(BtCoV/273/2005)      --------AGCAaCAgTc----ACAACAT----------------CcAACTGCaTgA---
BtRf-BetaCoV/HeB2013                  --------AGCAaCAgTc----ACAACAT----------------CcAACTGCaTgA---

SARS_CORONAVIRUS                      tcattcaaggAGgagTTAGataAAtaT---TTTAAgAATcATAcatcaccagatgtTGat
Severe_acute_respiratory_syndrom      ----------cacGgTgtttAaAcCGTGTtTgTActAATTATA-------------TGCC
SARS_coronavirus_civet007             ----------AGAGATTAGCACAACGTGTGTTTAACAATTATA-------------TGCC
SARS_coronavirus_GZ50                 ----------AGAGATTAGCACAACGTGTGTTTAACAATTATA-------------TGCC
SARS_coronavirus_Taiwan_TC1           ----------AGAGATTAGCACAACGTGTGTTTAACAATTATA-------------TGCC
Bat_coronavirus_(BtCoV/273/2005)      ----------AGAaATgtGtgCAgCGcaTtTTTAACAAcTATA-------------TGCC
BtRf-BetaCoV/HeB2013                  ----------AGAaATgtGtgCAgCGcaTtTTTAACAAcTATA-------------TGCC

SARS_CORONAVIRUS                      TTAgGTGacatctcTggCATTAaTGcTtCAgTTGTaaACaTTcAaaAAgAaattgaccGc
Severe_acute_respiratory_syndrom      TTATtTc------TTTACtTTATTGcTaCAATTGTGTACTTTTACTAgAA--------GT
SARS_coronavirus_civet007             TTATGTG------TTTACATTATTGTTCCAATTGTGTACTTTTACTAAAA--------GT
SARS_coronavirus_GZ50                 TTATGTG------TTTACATTATTGTTCCAATTGTGTACTTTTACTAAAA--------GT
SARS_coronavirus_Taiwan_TC1           TTATGTG------TTTACATTATTGTTCCAATTGTGTACTTTTACTAAAA--------GT
Bat_coronavirus_(BtCoV/273/2005)      TTATGTc------aTTACATTATTaTTCCAgTTGTGcACTTTcACaAAgg--------Gc
BtRf-BetaCoV/HeB2013                  TTATGTc------aTTACATTATTaTTCCAgTTGTGcACTTTcACaAAgg--------Gc

SARS_CORONAVIRUS                      ctCAATgaggttgcCaAGAATTtaAatgaatctCTcatCgAtCTcCAAgaAcTtggAAAg
Severe_acute_respiratory_syndrom      ACaAAT-------TCTAGAATTAaAG-------CaTCtaTgCCgACtACTATaGCaAAg-
SARS_coronavirus_civet007             ACCAAT-------TCTAGAATTAGAG-------CTTCACTACCTACAACTATTGCTAAA-
SARS_coronavirus_GZ50                 ACCAAT-------TCTAGAATTAGAG-------CTTCACTACCTACAACTATTGCTAAA-
SARS_coronavirus_Taiwan_TC1           ACCAAT-------TCTAGAATTAGAG-------CTTCACTACCTACAACTATTGCTAAA-
Bat_coronavirus_(BtCoV/273/2005)      ACCAAc-------TCaAGAATTAGAG-------CaTCACTtCCTACAACTATTGCTAAA-
BtRf-BetaCoV/HeB2013                  ACCAAc-------TCaAGAATTAGAG-------CaTCACTtCCTACAAtTATTGCTAAA-

SARS_CORONAVIRUS                      tatgAgcAGTaTatAaAaTGgccatggtacattTgGCTAggTTtTatagctgGcTTGatT
Severe_acute_respiratory_syndrom      ----AATAcTGTTAAGAGTG-------------TcGgTAAATTtT-------GTcTaGAg
SARS_coronavirus_civet007             ----AATAGTGTTAAGAGTG-------------TTGCTAAATTAT-------GTTTGGAT
SARS_coronavirus_GZ50                 ----AATAGTGTTAAGAGTG-------------TTGCTAAATTAT-------GTTTGGAT
SARS_coronavirus_Taiwan_TC1           ----AATAGTGTTAAGAGTG-------------TTGCTAAATTAT-------GTTTGGAT
Bat_coronavirus_(BtCoV/273/2005)      ----AATAGTGTTAAGAGTG-------------TTGCaAAATTAT-------GTTTGGAc
BtRf-BetaCoV/HeB2013                  ----AATAGTGTTAAGAGTG-------------TTGCaAAATTAT-------GTTTGGAc

SARS_CORONAVIRUS                      GCCatagtaatGGtgacAATTATGctttgctgtaTGAccAGTtgCtgtAgTTgTCTcAAg
Severe_acute_respiratory_syndrom      GCt--------tcatTTAATTATt----------TGA--AGTCACCtAAtTTTTCTAAA-
SARS_coronavirus_civet007             GCC--------GGCATTAATTATG----------TGA--AGTCACCCAAATTTTCTAAA-
SARS_coronavirus_GZ50                 GCC--------GGCATTAATTATG----------TGA--AGTCACCCAAATTTTCTAAA-
SARS_coronavirus_Taiwan_TC1           GCC--------GGCATTAATTATG----------TGA--AGTCACCCAAATTTTCTAAA-
Bat_coronavirus_(BtCoV/273/2005)      Gtt--------tGCATTgATTATG----------TGA--AaTCtCCtAAATcTTCTAAA-
BtRf-BetaCoV/HeB2013                  Gtt--------tGCATTgATTATG----------TGA--AaTCtCCtAAATcTTCTAAA-

SARS_CORONAVIRUS                      ggctgTTGTTC---------tTGTGGaTccTGcTGcaaatttgatgaagacgactctgag
Severe_acute_respiratory_syndrom      -----cTGaTaAatATtatAATtTGGtTtTTacTa-------------------------
SARS_coronavirus_civet007             -----TTGTTCACAATCGCtATGTGGCTATTGTTG-------------------------
SARS_coronavirus_GZ50                 -----TTGTTCACAATCGCtATGTGGCTATTGTTG-------------------------
SARS_coronavirus_Taiwan_TC1           -----TTGTTCACAATCGCtATGTGGCTATTGTTG-------------------------
Bat_coronavirus_(BtCoV/273/2005)      -----TTGTTCACAATtGCAATGTGGCTATTGTTG-------------------------
BtRf-BetaCoV/HeB2013                  -----TTGTTCACAATtGCAATGTGGCTATTGTTG-------------------------

SARS_CORONAVIRUS                      ccagtgctcaaaggagtcaaattacattacacataaacgaacTTAtGgATTTGtTTatgA
Severe_acute_respiratory_syndrom      ------------------------------------------TTAAGTgTTTGCcT---A
SARS_coronavirus_civet007             ------------------------------------------TTAAGTATTTGCTT---A
SARS_coronavirus_GZ50                 ------------------------------------------TTAAGTATTTGCTT---A
SARS_coronavirus_Taiwan_TC1           ------------------------------------------TTAAGTATTTGCTT---A
Bat_coronavirus_(BtCoV/273/2005)      ------------------------------------------TTAAGcATTTGCTT---g
BtRf-BetaCoV/HeB2013                  ------------------------------------------TTAAGcATTTGCTT---g

SARS_CORONAVIRUS                      GaaTCTTcAcaaT-TGgAACTGtaaCTTTgaagcaaGGTGaAaTC------AAggaTGcT
Severe_acute_respiratory_syndrom      GGTTCTTTAATCTActcAACcGCTGCTTT------aGGTGTttTaaTgTCTAATTTaGGc
SARS_coronavirus_civet007             GGTTCTcTAATCTgTGTAACTGCTGCTTT------TGGTGTACTCTTATCTAATTTTGGT
SARS_coronavirus_GZ50                 GGTTCTcTAATCTgTGTAACTGCTGCTTT------TGGTGTACTCTTATCTAATTTTGGT
SARS_coronavirus_Taiwan_TC1           GGTTCTcTAATCTgTGTAACTGCTGCTTT------TGGTGTACTCTTATCTAATTTTGGT
Bat_coronavirus_(BtCoV/273/2005)      GGTTCaTTAATCTATGTgACTGCaGCTTT------TGGTGTgCTtTTATCTAATTTaGGc
BtRf-BetaCoV/HeB2013                  GGTTCaTTAATCTATGTgACTGCaGCTTT------TGGTGTgCTtTTATCTAATTTaGGc

SARS_CORONAVIRUS                      ACTCCTTCagATTtTgtTcGcGcTActGcAacG-ATAcCgATaCa---AgCcTCACTcCc
Severe_acute_respiratory_syndrom      AtgCCTTCTTAcTGTAcTGGTtacAGAGAAggcTATtTgAAcTCtaCTAAtGTCACTAtT
SARS_coronavirus_civet007             gCTCCTTCTTATTGTAATGGTGTTAGAGAATTGTATcTtAATTCGTCTAACGTtACTACT
SARS_coronavirus_GZ50                 gCTCCTTCTTATTGTAATGGcGTTAGAGAATTGTATcTtAATTCGTCTAACGTtACTACT
SARS_coronavirus_Taiwan_TC1           gCTCCTTCTTATTGTAATGGcGTTAGAGAATTGTATcTtAATTCGTCTAACGTtACTACT
Bat_coronavirus_(BtCoV/273/2005)      AtcCCTTCTTATTGTggTGGTGTTAGAGAtTTGTATATCAATTCcTCTAAtGTCACcAtT
BtRf-BetaCoV/HeB2013                  AtcCCTTCTTATTGTggTGGTGTTAGAGAtTTGTATATCAATTCaTCTAAtGTCACcAtT

SARS_CORONAVIRUS                      tttcggATGGcTTatTGTtggcGTTgcacTtCTTGCtGTtTTTcatagcGcTTccaaaat
Severe_acute_respiratory_syndrom      ------gcaaccTaCTGTactGGTTCTaTaCCTTGtAGTgTTT------GTcT-------
SARS_coronavirus_civet007             ------ATGGATTTCTGTGAAGGTTCTTTTCCTTGCAGcATTT------GTTT-------
SARS_coronavirus_GZ50                 ------ATGGATTTCTGTGAAGGTTCTTTTCCTTGCAGcATTT------GTTT-------
SARS_coronavirus_Taiwan_TC1           ------ATGGATTTCTGTGAAGGTTCTTTTCCTTGCAGcATTT------GTTT-------
Bat_coronavirus_(BtCoV/273/2005)      ------ATGGAcTTCTGTGAgGGcTCTTTTCCTTGtAGTgTTT------GTTT-------
BtRf-BetaCoV/HeB2013                  ------ATGGAcTTCTGTGAgGGTTCTTTTCCTTGtAGTgTTT------GTTT-------

SARS_CORONAVIRUS                      cataaccctcaaaaagAgaTGGcaAcTAGcactctccaagggtgTTCaCTTtgTTtgcAa
Severe_acute_respiratory_syndrom      ----------------tAGTGG--tTTAG--------------ATTCttTaGAcaCcTAT
SARS_coronavirus_civet007             ----------------AAGTGG--ATTAG--------------AcTCCCTTGATTCTTAT
SARS_coronavirus_GZ50                 ----------------AAGTGG--ATTAG--------------AcTCCCTTGATTCTTAT
SARS_coronavirus_Taiwan_TC1           ----------------AAGTGG--ATTAG--------------AcTCCCTTGATTCTTAT
Bat_coronavirus_(BtCoV/273/2005)      ----------------AAGTGG--AcTAG--------------ATTCtCTTGATTCTTAc
BtRf-BetaCoV/HeB2013                  ----------------AAGTGG--AcTAG--------------ATTCtCTTGATTCTTAc

SARS_CORONAVIRUS                      CttGCTgttgttgTTTGtAACagTTtActcacACctTTTgcTCGTtgctGCTGGcCTTGA
Severe_acute_respiratory_syndrom      CCttCT-------TTaGAAACtATaCAaaTt-ACcATTTCATCtTtTAAatgGGAtTTaA
SARS_coronavirus_civet007             CCAGCT-------cTTGAAACCATTCAGGTG-ACGATTTCATCGTATAAGCTaGACTTGA
SARS_coronavirus_GZ50                 CCAGCT-------cTTGAAACCATTCAGGTG-ACGATTTCATCGTAcAAGCTaGACTTGA
SARS_coronavirus_Taiwan_TC1           CCAGCT-------cTTGAAACCATTCAGGTG-ACGATTTCATCGTAcAAGCTaGACTTGA
Bat_coronavirus_(BtCoV/273/2005)      CCcGCT-------TTaGAAACtATTCAGGTt-ACGATTTCATCGTATAAGtTGGACcTaA
BtRf-BetaCoV/HeB2013                  CCcGCT-------TTaGAAACtATTCAGGTt-ACGATTTCATCGTATAAGtTGGACcTaA

SARS_CORONAVIRUS                      agccccttttctctAtcTTTAtGcTTTAGtCtacttcttGCaGAGTataaactttgtaag
Severe_acute_respiratory_syndrom      -------------CtgcTTTtGG-cTTAGtt--------GCaGAGT--------------
SARS_coronavirus_civet007             -------------CAATTTTAGG-TcTgGCC--------GCTGAGT--------------
SARS_coronavirus_GZ50                 -------------CAATTTTAGG-TcTgGCC--------GCTGAGT--------------
SARS_coronavirus_Taiwan_TC1           -------------CAATTTTAGG-TcTgGCC--------GCTGAGT--------------
Bat_coronavirus_(BtCoV/273/2005)      -------------CAtTTTTAGG-TTTAGCa--------GCTGAaT--------------
BtRf-BetaCoV/HeB2013                  -------------CAtTTTTgGG-TTTAGCa--------GCTGAaT--------------

SARS_CORONAVIRUS                      aataataatgaGGcTTTGGCtTtgctggAaATGccGTTCcaAAAAccCaTTacTTTATgA
Severe_acute_respiratory_syndrom      ----------GGtTTTTGGCAT------ATATtcTtTTCACtAggTTtTTcTATgTAcTt
SARS_coronavirus_civet007             ----------GGGTTTTGGCAT------ATATGTTGTTCACAAAATTCTTTTATTTATTA
SARS_coronavirus_GZ50                 ----------GGGTTTTGGCAT------ATATGTTGTTCACAAAATTCTTTTATTTATTA
SARS_coronavirus_Taiwan_TC1           ----------GGGTTTTGGCAT------ATATGTTGTTCACAAAATTCTTTTATTTATTA
Bat_coronavirus_(BtCoV/273/2005)      ----------GGtTTTTGGCAT------AcATGTTGTTtACAAAATTtTTcTAcTTAcTt
BtRf-BetaCoV/HeB2013                  ----------GGtTTTTGGCAT------AcATGTTGTTtACAAAATTtTTcTAcTTAcTt

SARS_CORONAVIRUS                      tGccaactatTtTCTtTGCTggcATaCtAatTGTTacgactaTTGtaTAccTTaCaAtag
Severe_acute_respiratory_syndrom      GG--------atTggCTGCaATcATGC-AatTGTT-----tTTcaGCTATTTTGCag---
SARS_coronavirus_civet007             GG--------TCTtTCaGCTATAATGC-AGGTGTT-----CTTTGGCTATTTTGCTA---
SARS_coronavirus_GZ50                 GG--------TCTtTCaGCTATAATGC-AGGTGTT-----CTTTGGCTATTTTGCTA---
SARS_coronavirus_Taiwan_TC1           GG--------TCTtTCaGCTATAATGC-AGGTGTT-----CTTTGGCTATTTTGCTA---
Bat_coronavirus_(BtCoV/273/2005)      GG--------TCTCTCTGCTATAATGC-AGGTGTT-----CTTTGGCTAcTTTGCTA---
BtRf-BetaCoV/HeB2013                  GG--------TCTCTCTGCTATAATGC-AGGTGTT-----CTTTGGCTAcTTTGCTA---

SARS_CORONAVIRUS                      tGTaAcTTCtTCAattgTcaTTactTCAgGTGaTggcacaacaagtcctatttcTgAaCA
Severe_acute_respiratory_syndrom      -taCATTTtATtAGtAATTCTTGGCTtATGTGGT--------------------TaATaA
SARS_coronavirus_civet007             -GTCATTTCATCAGCAATTCTTGGCTCATGTGGT--------------------TTATCA
SARS_coronavirus_GZ50                 -GTCATTTCATCAGCAATTCTTGGCTCATGTGGT--------------------TTATCA
SARS_coronavirus_Taiwan_TC1           -GTCATTTCATCAGCAATTCTTGGCTCATGTGGT--------------------TTATCA
Bat_coronavirus_(BtCoV/273/2005)      -GTCATTTCATCAGCAATTCaTGGCTtATGTGGT--------------------TTATCA
BtRf-BetaCoV/HeB2013                  -GTCATTTCATCAGCAATTCaTGGCTtATGTGGT--------------------TTATCA

SARS_CORONAVIRUS                      TgAcTAccagattggtggTTaTACtgaaAAATGG-----GaaTCTGgAgTaaaagactgt
Severe_acute_respiratory_syndrom      TTAaTc------------TTGTAC----AAATGGCcCCgaTTTCaGCtATG---------
SARS_coronavirus_civet007             TTAGTA------------TTGTAC----AAATGGCACCCGTTTCTGCAATG---------
SARS_coronavirus_GZ50                 TTAGTA------------TTGTAC----AAATGGCACCCGTTTCTGCAATG---------
SARS_coronavirus_Taiwan_TC1           TTAGTA------------TTGTAC----AAATGGCACCCGTTTCTGCAATG---------
Bat_coronavirus_(BtCoV/273/2005)      TTAGcA------------TTGTAC----AAATGGCgCCtGTTTCTGCtATG---------
BtRf-BetaCoV/HeB2013                  TTAGcA------------TTGTAC----AAATGGCgCCtGTTTCTGCtATG---------

SARS_CORONAVIRUS                      GTTgtatTacACAgtTaCTTcaCTTCagaCTATTACc--------AGCTgTacTCAacTC
Severe_acute_respiratory_syndrom      GTTAGaATGTACATCTTCTTTGCaTCaTTtTATTAtgTATGGAAAAGtTATGTgCATgTt
SARS_coronavirus_civet007             GTTAGGATGTACATCTTCTTTGCTTCTTTCTAcTACATATGGAAgAGCTATGTTCATATC
SARS_coronavirus_GZ50                 GTTAGGATGTACATCTTCTTTGCTTCTTTCTAcTACATATGGAAgAGCTATGTTCATATC
SARS_coronavirus_Taiwan_TC1           GTTAGGATGTACATCTTCTTTGCTTCTTTCTAcTACATATGGAAgAGCTATGTTCATATC
Bat_coronavirus_(BtCoV/273/2005)      GTcAGGATGTACATtTTCTTTGCTTCTTTCTATTAtATATGGAAAAGCTATGTTCATATt
BtRf-BetaCoV/HeB2013                  GTcAGGATGTACATtTTCTTTGCTTCTTTCTATTAtATATGGAAAAGCTATGTTCATATt

SARS_CORONAVIRUS                      AattgagtacagacactggtgTtGAacaTgttACCTtcTtcAtcTaCAataaaattgtTG
Severe_acute_respiratory_syndrom      g--------------------TaGAcGGTTGtAatTCaTCaACTTGtA----------TG
SARS_coronavirus_civet007             A--------------------TGGATGGTTGCACCTaTTCGACTTGCA----------TG
SARS_coronavirus_GZ50                 A--------------------TGGATGGTTGCACCTCTTCGACTTGCA----------TG
SARS_coronavirus_Taiwan_TC1           A--------------------TGGATGGTTGCACCTCTTCGACTTGCA----------TG
Bat_coronavirus_(BtCoV/273/2005)      A--------------------TGGATGGTTGCACtTCTTCGACTTGCA----------TG
BtRf-BetaCoV/HeB2013                  A--------------------TGGATGGTTGCACtTCTTCaACgTGCA----------TG

SARS_CORONAVIRUS                      ATGaGCctgAAGaaCAtgTCcaaattCACaCaaTcGAcgGTtCAtCcggagTTGTTAATc
Severe_acute_respiratory_syndrom      ATGTGtTACAAaCGtA-ATaGaGCaACAaGa-GTcGAaTGTACAACT---ATTGTTAATG
SARS_coronavirus_civet007             ATGTGCTAtAAGCGCA-ATCGTGCCACACGC-GTTGAGTGTACAACT---ATTGTTAATG
SARS_coronavirus_GZ50                 ATGTGCTAtAAGCGCA-ATCGTGCCACACGC-GTTGAGTGTACAACT---ATTGTTAATG
SARS_coronavirus_Taiwan_TC1           ATGTGCTAtAAGCGCA-ATCGTGCCACACGC-GTTGAGTGTACAACT---ATTGTTAATG
Bat_coronavirus_(BtCoV/273/2005)      ATGTGCTACAAGCGCA-ATCGTGCtACgCGC-GTTGAGTGTACAACT---ATaGTTAATG
BtRf-BetaCoV/HeB2013                  ATGTGCTACAAGCGCA-ATCGTGCtACACGC-GTTGAGTGTACAACT---ATaGTTAATG

SARS_CORONAVIRUS                      cagTaAtGgaAcCaaTtTATG-aTgaaCcgAcGacGaCtactagcgtGCcTtTGtAAG--
Severe_acute_respiratory_syndrom      GtgTtAgaAGgTCcTTtTATGTCTATGCtAATGGAGGtaaa-----GGCTTtTGCAAact
SARS_coronavirus_civet007             GCATGAAGAGATCTTTCTATGTCTATGCAAATGGAGGCCGT-----GGCTTCTGCAAGAC
SARS_coronavirus_GZ50                 GCATGAAGAGATCTTTCTATGTCTATGCAAATGGAGGCCGT-----GGCTTCTGCAAGAC
SARS_coronavirus_Taiwan_TC1           GCATGAAGAGATCTTTCTATGTCTATGCAAATGGAGGCCGT-----GGCTTCTGCAAGAC
Bat_coronavirus_(BtCoV/273/2005)      GCATGAAaAGATCTTTCTATGTCTATGCAAAcGGAGGCCGT-----GGCTTCTGtAAGgC
BtRf-BetaCoV/HeB2013                  GCATGAAaAGATCTTTCTATGTCTATGCAAAcGGAGGCCGT-----GGCTTCTGtAAGgC

SARS_CORONAVIRUS                      -CACAAgctGAtgaGTacgAAcTTaTGtACtCATTC-GTttcGGaAgagacagGTACgTT
Severe_acute_respiratory_syndrom      aCACAATTGGAATTGTgTtAA-TTGTG-AtACATTCTGTgCTGGTA-------GTACATT
SARS_coronavirus_civet007             TCACAATTGGAATTGTCTCAA-TTGTG-ACACATTtTGcACTGGTA-------GTACATT
SARS_coronavirus_GZ50                 TCACAATTGGAATTGTCTCAA-TTGTG-ACACATTtTGcACTGGTA-------GTACATT
SARS_coronavirus_Taiwan_TC1           TCACAATTGGAATTGTCTCAA-TTGTG-ACACATTtTGcACTGGTA-------GTACATT
Bat_coronavirus_(BtCoV/273/2005)      TCACAATTGGAAcTGTCTtAA-TTGTG-AtACATTCTGTACTGGTA-------GTACtTT
BtRf-BetaCoV/HeB2013                  TCACAATTGGAAcTGTCTtAA-TTGTG-AtACATTCTGTACTGGTA-------GTACtTT

SARS_CORONAVIRUS                      aATagtTaATagcGtacttcTTttTCtTGcTTtcgTGgtAtTCttGcTagttAcACtAgc
Severe_acute_respiratory_syndrom      tATTAGTGATGAAG------TTGCgaGaGAcT---TGTCACTaCAGTTTAAAAGACCAAT
SARS_coronavirus_civet007             CATTAGTGATGAAG------TTGCTCGTGATT---TGTCACTCCAGTTTAAAAGACCAAT
SARS_coronavirus_GZ50                 CATTAGTGATGAAG------TTGCTCGTGATT---TGTCACTCCAGTTTAAAAGACCAAT
SARS_coronavirus_Taiwan_TC1           CATTAGTGATGAAG------TTGCTCGTGATT---TGTCACTCCAGTTTAAAAGACCAAT
Bat_coronavirus_(BtCoV/273/2005)      CATTAGcGAcGAAG------TaGCTCaTGATT---TGTCACTCCAGTTTAAgAGACCAAT
BtRf-BetaCoV/HeB2013                  CATcAGcGAcGAAG------TaGCTCGTGATT---TGTCACTCCAGTTTAAgAGACCAAT

SARS_CORONAVIRUS                      CAtCCtTACTGcgCttcgATtGTgtgcgTAcTGcTGcaATAtTGTTaacGTGAgtcttgt
Severe_acute_respiratory_syndrom      aAAtCCTACTGACCAGTCtTCtT----AcATcGTTG--ATAGTGTTaCaGTGAA------
SARS_coronavirus_civet007             CAACCCTACTGACCAGTCATCGT----ATATTGTTG--ATAGTGTTGCTGTGAA------
SARS_coronavirus_GZ50                 CAACCCTACTGACCAGTCATCGT----ATATTGTTG--ATAGTGTTGCTGTGAA------
SARS_coronavirus_Taiwan_TC1           CAACCCTACTGACCAGTCATCGT----ATATTGTTG--ATAGTGTTGCTGTGAA------
Bat_coronavirus_(BtCoV/273/2005)      tAAtCCTACaGACCAGTCtTCtT----ATgTTGTTG--ATAGTGTTGCTGTGAA------
BtRf-BetaCoV/HeB2013                  tAAtCCTACaGACCAGTCtTCtT----ATgTTGTTG--ATAGTGTcGCTGTGAA------

SARS_CORONAVIRUS                      AAAaccTtCttTTtACgTtTACTctcgTGtTAAaaatctgaattcttctagagttcctga
Severe_acute_respiratory_syndrom      gAATGGTtCcaTcCAtCTtTACTT---TGATAAaG-------------------------
SARS_coronavirus_civet007             AAATGGcGCGCTTCACCTCTACTT---TGAcAAGG-------------------------
SARS_coronavirus_GZ50                 AAATGGcGCGCTTCACCTCTACTT---TGAcAAGG-------------------------
SARS_coronavirus_Taiwan_TC1           AAATGGcGCGCTTCACCTCTACTT---TGAcAAGG-------------------------
Bat_coronavirus_(BtCoV/273/2005)      gAAcGGTGCaCTcCACCTCTACTT---TGATAAGG-------------------------
BtRf-BetaCoV/HeB2013                  gAAcGGTGCaCTcCAtCTCTACTT---TGATAAGG-------------------------

SARS_CORONAVIRUS                      tcttCTGGTCtAAAcGAaCTAaatattAtATtaGtTtTtCtgTTTgGaacttTaAtTTTA
Severe_acute_respiratory_syndrom      ----CTGGTC-AAAAGACtTATGAaAGACATtCtCTCTCtCATTTTG-----TtAAcTTA
SARS_coronavirus_civet007             ----CTGGTC-AAAAGACCTATGAGAGACATCCGCTCTCCCATTTTG-----TCAATTTA
SARS_coronavirus_GZ50                 ----CTGGTC-AAAAGACCTATGAGAGACATCCGCTCTCCCATTTTG-----TCAATTTA
SARS_coronavirus_Taiwan_TC1           ----CTGGTC-AAAAGACCTATGAGAGACATCCGCTCTCCCATTTTG-----TCAATTTA
Bat_coronavirus_(BtCoV/273/2005)      ----CTGGTC-AgAAGACtTAcGAGAGACAcCCaCTtTCtCATTTTG-----TCAATTTg
BtRf-BetaCoV/HeB2013                  ----CTGGTC-AgAAGACtTAcGAGAGACAcCCaCTtTCtCtTTTTG-----TCAATTTg

SARS_CORONAVIRUS                      GccatggcagattccaacggtactattACcgTTgaAGAGCTtAaAAagCTccttgaacaa
Severe_acute_respiratory_syndrom      G--------------------------ACAAccTGAGAGCTAAtAACACT----------
SARS_coronavirus_civet007             G--------------------------ACAATTTGAGAGCTAACAACACT----------
SARS_coronavirus_GZ50                 G--------------------------ACAATTTGAGAGCTAACAACACT----------
SARS_coronavirus_Taiwan_TC1           G--------------------------ACAATTTGAGAGCTAACAACACT----------
Bat_coronavirus_(BtCoV/273/2005)      G--------------------------ACAATcTGAGAGCTAACAACACT----------
BtRf-BetaCoV/HeB2013                  G--------------------------ACAATcTGAGAGCTAACAACACT----------

SARS_CORONAVIRUS                      tggaacctagtaAtAGGTTtcCTattccTTAcATGgatTtGTcTTctAcaattTGcCtAt
Severe_acute_respiratory_syndrom      ------------AAAGGTTCAtTGCCTATTA-ATGTtATAGTTTTTGA-----TGGtAAa
SARS_coronavirus_civet007             ------------AAAGGTTCACTGCCTATTA-ATGTCATAGTTTTTGA-----TGGCAAG
SARS_coronavirus_GZ50                 ------------AAAGGTTCACTGCCTATTA-ATGTCATAGTTTTTGA-----TGGCAAG
SARS_coronavirus_Taiwan_TC1           ------------AAAGGTTCACTGCCTATTA-ATGTCATAGTTTTTGA-----TGGCAAG
Bat_coronavirus_(BtCoV/273/2005)      ------------AAgGGTTCAtTaCCTATTA-ATGTtATtGTcTTTGA-----cGGCAAG
BtRf-BetaCoV/HeB2013                  ------------AAgGGTTCAtTaCCTATTA-ATGTtATtGTTTTTGA-----cGGCAAG

SARS_CORONAVIRUS                      gCCAAcaGgaAtagGTtTttgTaTAtaattaagttAaTtTtCcTCTGgcTgtTAtgGcCA
Severe_acute_respiratory_syndrom      TCaAAATGtGAaGAaTCatCTgCaA----------AaTCaGCgTCTGTtTACTACAGTCA
SARS_coronavirus_civet007             TCCAAATGCGACGAGTCTGCTTCTA----------AGTCTGCTTCTGTgTACTACAGcCA
SARS_coronavirus_GZ50                 TCCAAATGCGACGAGTCTGCTTCTA----------AGTCTGCTTCTGTgTACTACAGTCA
SARS_coronavirus_Taiwan_TC1           TCCAAATGCGACGAGTCTGCTTCTA----------AGTCTGCTTCTGTgTACTACAGTCA
Bat_coronavirus_(BtCoV/273/2005)      TCCAAATGCGACGAGTCTGCcgCcA----------AGTCTGCaTCTGTtTAtTACAGTCA
BtRf-BetaCoV/HeB2013                  TCCAAgTGCGAaGAGTCTGCcgCcA----------AGTCTGCaTCTGTtTAtTACAGTCA

SARS_CORONAVIRUS                      gtaactttagcttgttttgtgcttGCTGcTGTttacagaataaattgGatcACCggTgga
Severe_acute_respiratory_syndrom      ------------------------GCTtATGT---------------GtCAACCTATaCT
SARS_coronavirus_civet007             ------------------------GCTGATGT---------------GCCAACCTATTCT
SARS_coronavirus_GZ50                 ------------------------GCTGATGT---------------GCCAACCTATTCT
SARS_coronavirus_Taiwan_TC1           ------------------------GCTGATGT---------------GCCAACCTATTCT
Bat_coronavirus_(BtCoV/273/2005)      ------------------------GCTtATGT---------------GCCAACCTATTCT
BtRf-BetaCoV/HeB2013                  ------------------------GCTtATGT---------------GCCAACCTATTCT

SARS_CORONAVIRUS                      aTTGCTatcgCAAtggCTTGTcTtgtAgGcTtGAtgTgGctcagcTACTtcAttGcTTCt
Severe_acute_respiratory_syndrom      GTTaCTaGAtCAgGCatTaGTgTCtGAtGTTGGtGATAG------TgCgGAA--GTTgCa
SARS_coronavirus_civet007             GTTGCTTGACCAAGCTCTTGTATCAGACGTTGGAGATAG------TACTGAA--GTTTCC
SARS_coronavirus_GZ50                 GTTGCTTGACCAAGCTCTTGTATCAGACGTTGGAGATAG------TACTGAA--GTTTCC
SARS_coronavirus_Taiwan_TC1           GTTGCTTGACCAAGCTCTTGTATCAGACGTTGGAGATAG------TACTGAA--GTTTCC
Bat_coronavirus_(BtCoV/273/2005)      GTTaCTTGACCAAGCTCTTGTtTCgGAtGTTGGtGATAG------TACcGAg--GTTTCt
BtRf-BetaCoV/HeB2013                  GTTaCTTGACCAAGCTCTTGTtTCgGAtGTTGGtGATAG------TACcGAg--GTTTCt

SARS_CORONAVIRUS                      tTcAgacTGTTTGcgcgtAcGCgTtccATGTgGtCAttCaaTcCAGaAACTaacAtTcTT
Severe_acute_respiratory_syndrom      GTTAAaATGTTTG-----ATGCTT---AcGTtaAtA-CgTTTTCAtCAACTTTTAacGTa
SARS_coronavirus_civet007             GTTAAGATGTTTG-----ATGCTT---ATGTCGACA-CCTTTTCAGCAACTTTTAGTGTT
SARS_coronavirus_GZ50                 GTTAAGATGTTTG-----ATGCTT---ATGTCGACA-CCTTTTCAGCAACTTTTAGTGTT
SARS_coronavirus_Taiwan_TC1           GTTAAGATGTTTG-----ATGCTT---ATGTCGACA-CCTTTTCAGCAACTTTTAGTGTT
Bat_coronavirus_(BtCoV/273/2005)      GTcAAGATGTTTG-----ATGCTT---ATGTCGACA-CCTTTTCAGCAACTTTTAGTGTT
BtRf-BetaCoV/HeB2013                  GTcAAGATGTTTG-----ATGCTT---ATGTCGACA-CCTTTTCAGCAACTTTTAGTGTT

SARS_CORONAVIRUS                      CtcAacGtgccACTccAtGGCACTattcTGaccagACcGCTtctAGaaAGTgAaCt----
Severe_acute_respiratory_syndrom      CCaATGGAAAAACTcAA-aaCACT----aGTTGCaACtGCagAagctGAacTtGCAAAGa
SARS_coronavirus_civet007             CCTATGGAAAAACTTAA-GGCACT----TGTTGCTACAGCTCACAGCGAGTTAGCAAAGG
SARS_coronavirus_GZ50                 CCTATGGAAAAACTTAA-GGCACT----TGTTGCTACAGCTCACAGCGAGTTAGCAAAGG
SARS_coronavirus_Taiwan_TC1           CCTATGGAAAAACTTAA-GGCACT----TGTTGCTACAGCTCACAGCGAGTTAGCAAAGG
Bat_coronavirus_(BtCoV/273/2005)      CCTATGGAAAAACTTAA-GGCACT----aGTgGCcACgGCTCAtAGtGAGTTgGCtAAGG
BtRf-BetaCoV/HeB2013                  CCTATGGAAAAACTTAA-GGCACT----aGTgGCcACgGCTCAtAGtGAGTTgGCtAAGG

SARS_CORONAVIRUS                      -cGTAatcggAGcTGtgaTCCTTcgTggacAtcTTCGTaT----TGCtgGACAccaTcTa
Severe_acute_respiratory_syndrom      aTGTgtCcTTAGAcaaTGTCtTaTCT----ACtTTtaTtTCAGCaGCtCGgCAAGGgtTT
SARS_coronavirus_civet007             GTGTAGCTTTAGATGGTGTCCTTTCT----ACATTCGTGTCAGCTGCCCGACAAGGTGTT
SARS_coronavirus_GZ50                 GTGTAGCTTTAGATGGTGTCCTTTCT----ACATTCGTGTCAGCTGCCCGACAAGGTGTT
SARS_coronavirus_Taiwan_TC1           GTGTAGCTTTAGATGGTGTCCTTTCT----ACATTCGTGTCAGCTGCCCGACAAGGTGTT
Bat_coronavirus_(BtCoV/273/2005)      GTGTtGCTTTgGATGGTGTCtTaTCc----ACATTtaTtTCAGCTGCCCGtCAAGGcGTT
BtRf-BetaCoV/HeB2013                  GTGTtGCTTTgGATGGTGTCtTaTCc----ACATTtGTtTCAGCTGCCCGtCAAGGcGTT

SARS_CORONAVIRUS                      G--GAcgCtG----TGACAtcAAGGAcctgcctaaagaaatcacTGTTgcTacATcaCga
Severe_acute_respiratory_syndrom      GTTGATtCaGATGTaGAaACtAAaGA------------------TGTTgTTGAATGTCTt
SARS_coronavirus_civet007             GTTGATACCGATGTTGACACAAAGGA------------------TGTTATTGAATGTCTC
SARS_coronavirus_GZ50                 GTTGATACCGATGTTGACACAAAGGA------------------TGTTATTGAATGTCTC
SARS_coronavirus_Taiwan_TC1           GTTGATACCGATGTTGACACAAAGGA------------------TGTTATTGAATGTCTC
Bat_coronavirus_(BtCoV/273/2005)      GTTGATACtGATGTTGAtACAAAGGA------------------cGTcATTGAATGTCTC
BtRf-BetaCoV/HeB2013                  GTTGATACtGATGTTGAtACAAAGGA------------------cGTcATTGAATGTCTC

SARS_CORONAVIRUS                      AcgCTTTCttATtAC---aAaTTgGgAgcttcgcagcgtGTagCAGGTGactcaggtttt
Severe_acute_respiratory_syndrom      AAAtTgTCACATCAaTCTGACaTAGAA------------GTtACtGGcG-----------
SARS_coronavirus_civet007             AAACTTTCACATCACTCTGACTTAGAA------------GTGACAGGTG-----------
SARS_coronavirus_GZ50                 AAACTTTCACATCACTCTGACTTAGAA------------GTGACAGGTG-----------
SARS_coronavirus_Taiwan_TC1           AAACTTTCACATCACTCTGACTTAGAA------------GTGACAGGTG-----------
Bat_coronavirus_(BtCoV/273/2005)      AAgCTTTCtCATCACTCTGACTTAGAA------------GTGACAGGTG-----------
BtRf-BetaCoV/HeB2013                  AAgCTTTCtCATCACTCTGACTTAGAA------------GTGACAGGTG-----------

SARS_CORONAVIRUS                      gctgcatACAGTcGctACAgg---ATtggCAaCTATAA----aTTaAAcACAgacCattC
Severe_acute_respiratory_syndrom      -------AtAGTTGTAAtAACTatATGCTCACCTATAACAAAGTTGAAAACATGACa-CC
SARS_coronavirus_civet007             -------ACAGTTGTAACAAtTTCATGCTCACCTATAAtAAgGTTGAAAACATGACG-CC
SARS_coronavirus_GZ50                 -------ACAGTTGTAACAAtTTCATGCTCACCTATAAtAAgGTTGAAAACATGACG-CC
SARS_coronavirus_Taiwan_TC1           -------ACAGTTGTAACAAtTTCATGCTCACCTATAAtAAgGTTGAAAACATGACG-CC
Bat_coronavirus_(BtCoV/273/2005)      -------ACAGcTGTAAtAACTTCATGCTCACCTATAACAAAGTTGAAAACATGACG-CC
BtRf-BetaCoV/HeB2013                  -------ACAGcTGTAAtAACTTCATGCTCACCTATAACAAAGTTGAAAACATGACG-CC

SARS_CORONAVIRUS                      CAGtagcagTGaCaatatTGctTTGctTGTAcaGtAAGtgAcAacagatgtttcatctcg
Severe_acute_respiratory_syndrom      CcGtGAcCTTGGtG--CtTGTATTGACTGTAgTGCgcGtCATA-----------------
SARS_coronavirus_civet007             CAGAGATCTTGGCG--CATGTATTGACTGTAATGCAAGGCATA-----------------
SARS_coronavirus_GZ50                 CAGAGATCTTGGCG--CATGTATTGACTGTAATGCAAGGCATA-----------------
SARS_coronavirus_Taiwan_TC1           CAGAGATCTTGGCG--CATGTATTGACTGTAATGCAAGGCATA-----------------
Bat_coronavirus_(BtCoV/273/2005)      CAGAGATCTTGGtG--CATGTATTGAtTGTAATGCAAGGCATA-----------------
BtRf-BetaCoV/HeB2013                  CAGAGATCTTGGtG--CATGTATTGAtTGTAATGCAAGGCAcA-----------------

SARS_CORONAVIRUS                      TTgActttCAgGttactaTAGCAgAgAtaTtACtaattattatgaggacttttAAaGTTT
Severe_acute_respiratory_syndrom      TTAATGCgCAgG------TAGCAAAAA-GTCAC--------------------AAcaTTg
SARS_coronavirus_civet007             TcAATGCCCAAG------TAGCAAAAA-GTCAC--------------------AATGTTT
SARS_coronavirus_GZ50                 TcAATGCCCAAG------TAGCAAAAA-GTCAC--------------------AATGTTT
SARS_coronavirus_Taiwan_TC1           TcAATGCCCAAG------TAGCAAAAA-GTCAC--------------------AATGTTT
Bat_coronavirus_(BtCoV/273/2005)      TTAATGCCCAAG------TAGCAAAAA-GTCAC--------------------AATGTcT
BtRf-BetaCoV/HeB2013                  TTAATGCCCAAG------TAGCAAAAA-GTCAC--------------------AATGTcT

SARS_CORONAVIRUS                      C---CATtTGGAATcttgattacaTcAtAaACctCATaattaaaaaTTTATCTaAgtcac
Severe_acute_respiratory_syndrom      CttTgATaTGGAAc---------GTtAAAGAtTtCATGTC------aTTgTCTGAA----
SARS_coronavirus_civet007             CACTCATCTGGAAT---------GTAAAAGACTACATGTC------TTTATCTGAA----
SARS_coronavirus_GZ50                 CACTCATCTGGAAT---------GTAAAAGACTACATGTC------TTTATCTGAA----
SARS_coronavirus_Taiwan_TC1           CACTCATCTGGAAT---------GTAAAAGACTACATGTC------TTTATCTGAA----
Bat_coronavirus_(BtCoV/273/2005)      CgCTCATCTGGAAc---------GTcAAAGACTAtATGTC------aTTgTCTGAA----
BtRf-BetaCoV/HeB2013                  CgCTCATCTGGAAc---------GTcAAAGACTAtATGTC------aTTgTCTGAA----

SARS_CORONAVIRUS                      tAaCTGaGaAtAaAtATTCtcAaTtag---AtGAAGAgCAACcaatggAgAttgaTTAaA
Severe_acute_respiratory_syndrom      CAaCTaCGaAAACAAATaCGTAGTGCTGCtAAaAAGAAtAAC------tTACCTTTTAag
SARS_coronavirus_civet007             CAGCTGCGTAAACAAATTCGTAGTGCTGCCAAGAAGAACAAC------ATACCTTTTAGA
SARS_coronavirus_GZ50                 CAGCTGCGTAAACAAATTCGTAGTGCTGCCAAGAAGAACAAC------ATACCTTTTAGA
SARS_coronavirus_Taiwan_TC1           CAGCTGCGTAAACAAATTCGTAGTGCTGCCAAGAAGAACAAC------ATACCTTTTAGA
Bat_coronavirus_(BtCoV/273/2005)      CAGtTGCGcAAgCAAATTCGTAGTGCTGCtAAaAAGAACAAC------ATACCcTTTAGg
BtRf-BetaCoV/HeB2013                  CAGtTGCGcAAgCAAATTCGTAGTGCTGCtAAaAAGAACAAC------ATACCcTTTAGg

SARS_CORONAVIRUS                      CgAACaTGaaaattattcttttcttggcacTGaTAacACTcG-CtAcTTGTgAgctTtAT
Severe_acute_respiratory_syndrom      tTgACaTG----------------------TGCaACtACTAGACAAGTTGTtAATGTtgT
SARS_coronavirus_civet007             CTAACTTG----------------------TGCTACAACTAGACAgGTTGTCAATGTCAT
SARS_coronavirus_GZ50                 CTAACTTG----------------------TGCTACAACTAGACAgGTTGTCAATGTCAT
SARS_coronavirus_Taiwan_TC1           CTAACTTG----------------------TGCTACAACTAGACAgGTTGTCAATGTCAT
Bat_coronavirus_(BtCoV/273/2005)      CTcACTTG----------------------TGCTACtACTAGgCAAGTTtTaAAcGTCAT
BtRf-BetaCoV/HeB2013                  CTcACTTG----------------------TGCTACtACTAGgCAAGTTGTCAAcGTCAT

SARS_CORONAVIRUS                      cACTACcAAg----------AGtGTGtTAgaggTacaacAGTACTT--------------
Severe_acute_respiratory_syndrom      AACaACaAAgATagCACTtAAGGGTGGTAAaATTGT--TAaTAaTTGGTTgAAgCagtTa
SARS_coronavirus_civet007             AACTACTAAAATCTCACTCAAGGGTGGTAAGATTGT--TAGTACTTGGTTTAAACTTATG
SARS_coronavirus_GZ50                 AACTACTAAAATCTCACTCAAGGGTGGTAAGATTGT--TAGTACTTGtTTTAAACTTATG
SARS_coronavirus_Taiwan_TC1           AACTACTAAAATCTCACTCAAGGGTGGTAAGATTGT--TAGTACTTGtTTTAAACTTATG
Bat_coronavirus_(BtCoV/273/2005)      AACTACTAAAATtTCACTCAAGGGTGGTAAGgTTGT--TAGTACTTGGTTTAAAtTTATG
BtRf-BetaCoV/HeB2013                  AACTACTAAAATtTCACTCAAGGGTGGTAAGgTTGT--TAGTACTTGGTTTAAAtTTgTG

SARS_CORONAVIRUS                      -TTAAAagaACcTT-------GcTCTTctgGaATctaTTTaaTA-------AcaCCtGTt
Severe_acute_respiratory_syndrom      aTTAAAGttACAcTtgTGTtCcTTtTTGtTGCtgctaTTTtcTAttTaATaAcaCCtGTt
SARS_coronavirus_civet007             CTTAAgGCCACATTATTGTGCGTTCTTGCTGCATTGGTTTGTTACATCgTTATGCCAGTA
SARS_coronavirus_GZ50                 CTTAAgGCCACATTATTGTGCGTTCTTGCTGCATTGGTTTGTTAtATCgTTATGCCAGTA
SARS_coronavirus_Taiwan_TC1           CTTAAgGCCACATTATTGTGCGTTCTTGCTGCATTGGTTTGTTAtATCgTTATGCCAGTA
Bat_coronavirus_(BtCoV/273/2005)      CTgAAAGtCACAcTtTTGTGtGTTCTatCTGCATTatTcTGTTACATCATTATGCCAGTA
BtRf-BetaCoV/HeB2013                  CTgAAAGtCACAcTtTTGTGtGTTCTatCTGCATTatTcTGTTACATCATTATGCCAGTA

SARS_CORONAVIRUS                      CATgtcaTGTCTAaaCATacTGacTtTtCAAgTGAAATCATaGGATACAAgGCTATTgAt
Severe_acute_respiratory_syndrom      CATgtcaTGTCTAaaCATacTGacTtTtCAAgTGAAATCATaGGATACAAgGCTATTgAt
SARS_coronavirus_civet007             CATACATTGTCaATCCATGATGGTTAcACAAATGAAATCATTGGtTACAAAGCcATTCAG
SARS_coronavirus_GZ50                 CATACATTGTCaATCCATGATGGTTAcACAAATGAAATCATTGGtTACAAAGCcATTCAG
SARS_coronavirus_Taiwan_TC1           CATACATTGTCaATCCATGATGGTTAcACAAATGAAATCATTGGtTACAAAGCcATTCAG
Bat_coronavirus_(BtCoV/273/2005)      CActCATTGTCTgTtCATGATGGTTATACAAATGAAATCATTGGATACAAAGCTATcCAG
BtRf-BetaCoV/HeB2013                  CActCATTGTCTgTtCATGATGGcTATACAAATGAAATCATTGGATACAAAGCTATcCAG

SARS_CORONAVIRUS                      GgTGGTGTCACTCGTGACATAGcaTCTACaGATacTTGTTTTGCtAACAAACATGCTGaT
Severe_acute_respiratory_syndrom      GgTGGTGTCACTCGTGACATAGcaTCTACaGATacTTGTTTTGCtAACAAACATGCTGaT
SARS_coronavirus_civet007             GATGGTGTCACTCGTGACATcaTTTCTACTGATGATTGTTTTGCAAAtAAACATGCTGGT
SARS_coronavirus_GZ50                 GATGGTGTCACTCGTGACATcaTTTCTACTGATGATTGTTTTGCAAAtAAACATGCTGGT
SARS_coronavirus_Taiwan_TC1           GATGGTGTCACTCGTGACATcaTTTCTACTGATGATTGTTTTGCAAAtAAACATGCTGGT
Bat_coronavirus_(BtCoV/273/2005)      GAcGGTGTCACTCGTGACATAGTgTCTACTGATGATTGTTTTGCAAACAAACATGCTGGT
BtRf-BetaCoV/HeB2013                  GAcGGTGTCACTCGTGACATAGTgTCTACTGATGATTGTTTTGCAAACAAACATGCTGGT

SARS_CORONAVIRUS                      TTTGACaCATGGTTTAGCCAGCGTGGTGGTagTTATActAATGACAAAgctTGCCCatTg
Severe_acute_respiratory_syndrom      TTTGACaCATGGTTTAGCCAGCGTGGTGGTagTTATActAATGACAAAgctTGCCCatTg
SARS_coronavirus_civet007             TTTGACGCATGGTTTAGCCAGCGTGGTGGTTCaTAcAAAAATGACAAAAGCTGCCCTGTA
SARS_coronavirus_GZ50                 TTTGACGCATGGTTTAGCCAGCGTGGTGGTTCaTAcAAAAATGACAAAAGCTGCCCTGTA
SARS_coronavirus_Taiwan_TC1           TTTGACGCATGGTTTAGCCAGCGTGGTGGTTCaTAcAAAAATGACAAAAGCTGCCCTGTA
Bat_coronavirus_(BtCoV/273/2005)      TTcGACtCtTGGTTTAGCCAGCGTGGTGGTTCTTATAggAATGAtAAgAGCTGCCCTGTt
BtRf-BetaCoV/HeB2013                  TTcGACtCtTGGTTTAGCCAGCGTGGTGGTTCTTATAggAATGAtAAgAGCTGCCCTGTt

SARS_CORONAVIRUS                      aTtGCTGCagTCATaACAAGAGAagTgGGTTTtgTCGTGCCTGGtTTgCCTGGcACgaTa
Severe_acute_respiratory_syndrom      aTtGCTGCagTCATaACAAGAGAagTgGGTTTtgTCGTGCCTGGtTTgCCTGGcACgaTa
SARS_coronavirus_civet007             GTAGCTGCTATCATTACAAGAGAGATTGGTTTCATaGTGCCTGGCTTACCgGGTACTGTG
SARS_coronavirus_GZ50                 GTAGCTGCTATCATTACAAGAGAGATTGGTTTCATaGTGCCTGGCTTACCgGGTACTGTG
SARS_coronavirus_Taiwan_TC1           GTAGCTGCTATCATTACAAGAGAGATTGGTTTCATaGTGCCTGGCTTACCgGGTACTGTG
Bat_coronavirus_(BtCoV/273/2005)      GTAGCTGCcATCATTACtAGgGAGATTGGTTTCATCGTGCCTGGaTTACCTGGTACTGTG
BtRf-BetaCoV/HeB2013                  GTAGCTGCcATCATTACtAGgGAGATTGGcTTCATCGTGCCTGGaTTACCTGGTACTGTG

SARS_CORONAVIRUS                      TTAcGcACAAcTAATGGTGACTTTTTGCATTTctTACCTaGaGTTTTTAGTGCaGTTGGt
Severe_acute_respiratory_syndrom      TTAcGcACAAcTAATGGTGACTTTTTGCATTTctTACCTaGaGTTTTTAGTGCaGTTGGt
SARS_coronavirus_civet007             cTgAGAgCAATcAATGGTGACTTcTTGCATTTTCTACCTCGTGTTTTTAGTGCTGTTGGC
SARS_coronavirus_GZ50                 cTgAGAgCAATcAATGGTGACTTcTTGCATTTTCTACCTCGTGTTTTTAGTGCTGTTGGC
SARS_coronavirus_Taiwan_TC1           cTgAGAgCAATcAATGGTGACTTcTTGCATTTTCTACCTCGTGTTTTTAGTGCTGTTGGC
Bat_coronavirus_(BtCoV/273/2005)      TTAAGAACAATTAATGGTGACTTTTTGCATTTTCTACCTCGcGTTTTTAGTGCcGTTGGC
BtRf-BetaCoV/HeB2013                  TTAAGAACAATTAATGGTGACTTTTTGCATTTTCTACCTCGcGTTTTTAGTGCcGTTGGC

SARS_CORONAVIRUS                      AACATcTGtTACACACCATCAAAACTTATaGAGTAcAcTGAcTTTGCaACaTCaGCTTGt
Severe_acute_respiratory_syndrom      AACATcTGtTACACACCATCAAAACTTATaGAGTAcAcTGAcTTTGCaACaTCaGCTTGt
SARS_coronavirus_civet007             AACATTTGCTACACACCtTCcAAACTcATTGAGTATAGTGATTTTGCTACCTCTGCTTGC
SARS_coronavirus_GZ50                 AACATTTGCTACACACCtTCcAAACTcATTGAGTATAGTGATTTTGCTACCTCTGCTTGC
SARS_coronavirus_Taiwan_TC1           AACATTTGCTACACACCtTCcAAACTcATTGAGTATAGTGATTTTGCTACCTCTGCTTGC
Bat_coronavirus_(BtCoV/273/2005)      AACATTTGCTACACACCATCAAAACTTATTGAGTATAGTGATTTTGCTACtTCTGCTTGC
BtRf-BetaCoV/HeB2013                  AACATTTGCTACACACCATCAAAACTTATTGAGTATAGTGATTTTGCTACtTCTGCTTGC

SARS_CORONAVIRUS                      GTTTTGGCTGCTGAATGTACAATTTTTAAaGATGCTtctGGTAAgCCaGTaCCATATTGT
Severe_acute_respiratory_syndrom      GTTTTGGCTGCTGAATGTACAATTTTTAAaGATGCTtctGGTAAgCCaGTaCCATATTGT
SARS_coronavirus_civet007             GTTcTtGCTGCTGAgTGTACAATTTTTAAGGATGCTATGGGcAAACCTGTGCCATATTGT
SARS_coronavirus_GZ50                 GTTcTtGCTGCTGAgTGTACAATTTTTAAGGATGCTATGGGcAAACCTGTGCCATATTGT
SARS_coronavirus_Taiwan_TC1           GTTcTtGCTGCTGAgTGTACAATTTTTAAGGATGCTATGGGcAAACCTGTGCCATATTGT
Bat_coronavirus_(BtCoV/273/2005)      GTcTTGGCTGCgGAATGTACcATTTTTAAGGATGCTATGGGTAAACCTGTGCCATATTGT
BtRf-BetaCoV/HeB2013                  GTcTTGGCTGCgGAATGTACcATTTTTAAGGATGCTATGGGTAAgCCTGTGCCATATTGT

SARS_CORONAVIRUS                      TATGAtACcAATgTACTAGAaGGTTCTgTTgCTTATgaaagttTaCGcCCTGACACaCGT
Severe_acute_respiratory_syndrom      TATGAtACcAATgTACTAGAaGGTTCTgTTgCTTATgaaagttTaCGcCCTGACACaCGT
SARS_coronavirus_civet007             TATGACACTAATTTgCTAGAGGGTTCTATTTCTTATAGTGAGCTTCGTCCaGACACTCGT
SARS_coronavirus_GZ50                 TATGACACTAATTTgCTAGAGGGTTCTATTTCTTATAGTGAGCTTCGTCCaGACACTCGT
SARS_coronavirus_Taiwan_TC1           TATGACACTAATTTgCTAGAGGGTTCTATTTCTTATAGTGAGCTTCGTCCaGACACTCGT
Bat_coronavirus_(BtCoV/273/2005)      TATGACACTAAcTTACTAGAGGGTTCTATTTCTTAcAGTGAGCTgCGTCCTGACACTCGT
BtRf-BetaCoV/HeB2013                  TATGACACTAAcTTACTAGAGGGTTCTATTTCTTAcAGTGAGCTgCGTCCTGACACTCGT

SARS_CORONAVIRUS                      TATGTGCTcATGGATGGCTCTATtATtCAATTTCCTAACACCTACCTtGAAGGTTCTGTT
Severe_acute_respiratory_syndrom      TATGTGCTcATGGATGGCTCTATtATtCAATTTCCTAACACCTACCTtGAAGGTTCTGTT
SARS_coronavirus_civet007             TATGTGCTTATGGATGGtTCcATCATACAgTTTCCTAACACtTACCTGGAgGGTTCTGTT
SARS_coronavirus_GZ50                 TATGTGCTTATGGATGGtTCcATCATACAgTTTCCTAACAttTACCTGGAgGGTTCTGTT
SARS_coronavirus_Taiwan_TC1           TATGTGCTTATGGATGGtTCcATCATACAgTTTCCTAACACtTACCTGGAgGGTTCTGTT
Bat_coronavirus_(BtCoV/273/2005)      TATGTGCTTATGGATGGCTCTATCATACAATTcCCTAACACCTACCTaGAAGGTTCTGTT
BtRf-BetaCoV/HeB2013                  TATGTGCTTATGGATGGCTCTATCATACAATTcCCTAACACCTACCTaGAAGGTTCTGTT

SARS_CORONAVIRUS                      AGAGTGGTAACAACTTTTGATtCTGAGTACTGTAGgCAcGGCACtTGTGAAAGaTCAGAA
Severe_acute_respiratory_syndrom      AGAGTGGTAACAACTTTTGATtCTGAGTACTGTAGgCAcGGCACtTGTGAAAGaTCAGAA
SARS_coronavirus_civet007             AGAGTaGTAACAACTTTTGATGCTGAGTACTGTAGACATGGtACATGcGAAAGGTCAGAA
SARS_coronavirus_GZ50                 AGAGTaGTAACAACTTTTGATGCTGAGTACTGTAGACATGGtACATGcGAAAGGTCAGAA
SARS_coronavirus_Taiwan_TC1           AGAGTaGTAACAACTTTTGATGCTGAGTACTGTAGACATGGtACATGcGAAAGGTCAGAA
Bat_coronavirus_(BtCoV/273/2005)      AGAGTGGTtACAACTTTTGATGCaGAaTACTGccGtCATGGCACATGTGAgAGGTCAGAA
BtRf-BetaCoV/HeB2013                  AGAGTGGTtACAACTTTTGATGCaGAGTACTGccGtCATGGCACATGTGAgAGGTCAGAA

SARS_CORONAVIRUS                      GCTGGTgTTTGtgTATCTACTAGTGGTAGATGGGTaCTTAAcAATGAttATTACAGAtCT
Severe_acute_respiratory_syndrom      GCTGGTgTTTGtgTATCTACTAGTGGTAGATGGGTaCTTAAcAATGAttATTACAGAtCT
SARS_coronavirus_civet007             GCaGGTATTTGCCTATCTACcAGTGGTAGATGGGTTCTTAATAATGAGCATTACAGAGCT
SARS_coronavirus_GZ50                 GtaGGTATTTGCCTATCTACcAGTGGTAGATGGGTTCTTAATAATGAGCATTACAGAGCT
SARS_coronavirus_Taiwan_TC1           GtaGGTATTTGCCTATCTACcAGTGGTAGATGGGTTCTTAATAATGAGCATTACAGAGCT
Bat_coronavirus_(BtCoV/273/2005)      GCTGGTATTTGCCTgTCTACTAGTGGTAGATGGGTTCTTAATAATGAaCAcTAtAGgGCT
BtRf-BetaCoV/HeB2013                  GCTGGTATTTGCCTgTCTACTAGTGGTAGATGGGTTCTTAATAATGAaCAcTAtAGgGCT

SARS_CORONAVIRUS                      tTACCAGGAGTTTTCTGTGGTGTaGATGCtgTaAATtTacTTaCTAAtATgTTTACACCa
Severe_acute_respiratory_syndrom      tTACCAGGAGTTTTCTGTGGTGTaGATGCtgTaAATtTacTTaCTAAtATgTTTACACCa
SARS_coronavirus_civet007             CTAtCAGGAGTTTTCTGTGGTGTTGATGCgATGAATCTCATaGCTAACATCTTTACtCCT
SARS_coronavirus_GZ50                 CTAtCAGGAGTTTTCTGTGGTGTTGATGCgATGAATCTCATaGCTAACATCTTTACtCCT
SARS_coronavirus_Taiwan_TC1           CTAtCAGGAGTTTTCTGTGGTGTTGATGCgATGAATCTCATaGCTAACATCTTTACtCCT
Bat_coronavirus_(BtCoV/273/2005)      tTgCCAGGAGTcTTtTGTGGTGTTGATGCcATGAATCTtATTGCTAACATCTTcACACCT
BtRf-BetaCoV/HeB2013                  CTgCCAGGAGTcTTtTGTGGTGTTGATGCcATGAATCTtATTGCTAACATCTTcACACCT

SARS_CORONAVIRUS                      CTaaTTCAACCTaTTGGTGCTTTgGAcaTATCaGCaTCTaTAGTaGCTGGTGGTATTgTa
Severe_acute_respiratory_syndrom      CTaaTTCAACCTaTTGGTGCTTTgGAcaTATCaGCaTCTaTAGTaGCTGGTGGTATTgTa
SARS_coronavirus_civet007             CTTGTgCAACCTGTgGGTGCTTTAGATGTgTCTGCTTCaGcAGTGGCTGGTGGTATTATT
SARS_coronavirus_GZ50                 CTTGTgCAACCTGTgGGTGCTTTAGATGTgTCTGCTTCaGTAGTGGCTGGTGGTATTATT
SARS_coronavirus_Taiwan_TC1           CTTGTgCAACCTGTgGGTGCTTTAGATGTgTCTGCTTCaGTAGTGGCTGGTGGTATTATT
Bat_coronavirus_(BtCoV/273/2005)      CTTGTTCAACCTGTTGGTGCTTTAGATGTATCTGCTTCTGTAGTGGCgGGTGGTATTATT
BtRf-BetaCoV/HeB2013                  CTTGTTCAACCTGTTGGTGCTTTAGATGTATCTGCTTCTGTAGTGGCgGGTGGTATTATT

SARS_CORONAVIRUS                      GCtATcgTaGTaACaTGcctTGCCTACTAtTTTATGAggTTtAGAaGaGCTTTTGGTGAa
Severe_acute_respiratory_syndrom      GCtATcgTaGTaACaTGcctTGCCTACTAtTTTATGAggTTtAGAaGaGCTTTTGGTGAa
SARS_coronavirus_civet007             GCCATATTGGTGACTTGTGCTGCCTACTACTTTATGAAATTCAGACGTGCTTTTGGTGAG
SARS_coronavirus_GZ50                 GCCATATTGGTGACTTGTGCTGCCTACTACTTTATGAAATTCAGACGTGtTTTTGGTGAG
SARS_coronavirus_Taiwan_TC1           GCCATATTGGTGACTTGTGCTGCCTACTACTTTATGAAATTCAGACGTGtTTTTGGTGAG
Bat_coronavirus_(BtCoV/273/2005)      GCCATATTGGTGACTTGTGCTGCtTACTACTTTATGAAATTCAGgCGTGCaTTTGGTGAG
BtRf-BetaCoV/HeB2013                  GCCATATTGGTGACTTGTGCTGCtTACTACTTTATGAAATTCAGgCGTGCaTTTGGTGAG

SARS_CORONAVIRUS                      TACAgtCATGTaGTTGCcttTAATaCtTTACTaTTccTtATGTCaTTCACTgTACTCTGT
Severe_acute_respiratory_syndrom      TACAgtCATGTaGTTGCcttTAATaCtTTACTaTTccTtATGTCaTTCACTgTACTCTGT
SARS_coronavirus_civet007             TACAACCATGTTGTTGCTGCTAATGCAcTttTGTTTTTGATGTCTTTCACTATACTCTGT
SARS_coronavirus_GZ50                 TACAACCATGTTGTTGCTGCTAATGCAcTttTGTTTTTGATGTCTTTCACTATACTCTGT
SARS_coronavirus_Taiwan_TC1           TACAACCATGTTGTTGCTGCTAATGCAcTttTGTTTTTGATGTCTTTCACTATACTCTGT
Bat_coronavirus_(BtCoV/273/2005)      TACAACCATGTTGTaGCTGCTAATGCATTACTGTTTTTGATGTCTTTCACTATACTCTGT
BtRf-BetaCoV/HeB2013                  TACAACCATGTTGTaGCTGCTAATGCATTACTGTTTTTGATGTCTTTCACTATACTCTGT

SARS_CORONAVIRUS                      TTaaCACCAGtTTACtcaTTcTTaCCtGGtGTTTATTCTGTtaTTTACTTGTACTTGACA
Severe_acute_respiratory_syndrom      TTaaCACCAGtTTACtcaTTcTTaCCtGGtGTTTATTCTGTtaTTTACTTGTACTTGACA
SARS_coronavirus_civet007             cTGGCACCAGCTTACAGCTTTcTGCCGGGAGTcTAcTCaGTCTTTTACTTGTACTTGACA
SARS_coronavirus_GZ50                 cTGGtACCAGCTTACAGCTTTcTGCCGGGAGTcTAcTCaGTCTTTTACTTGTACTTGACA
SARS_coronavirus_Taiwan_TC1           cTGGtACCAGCTTACAGCTTTcTGCCGGGAGTcTAcTCaGTCTTTTACTTGTACTTGACA
Bat_coronavirus_(BtCoV/273/2005)      TTGGCACCtGCcTAtAGCTTTTTGCCaGGAGTTTATTCTGTCTTTTACTTGTACTTGACA
BtRf-BetaCoV/HeB2013                  TTGGCACCtGCcTAtAGtTTTTTGCCaGGAGTTTATTCTGTCTTTTACTTGTACTTGACA

SARS_CORONAVIRUS                      TTtTATcTTACTAATGATGTTTCtTTTTTAGCaCAtaaaaAAaGaacaaaGaccatTgaG
Severe_acute_respiratory_syndrom      TTtTATcTTACTAATGATGTTTCtTTTTTAGCaCAtaTTCAgTG------GaTgGtTATG
SARS_coronavirus_civet007             TTCTATTTcACcAATGATGTTTCATTcTTgGCTCACCTTCAATG------GTTTGCcATG
SARS_coronavirus_GZ50                 TTCTATTTcACcAATGATGTTTCATTcTTgGCTCACCTTCAATG------GTTTGCcATG
SARS_coronavirus_Taiwan_TC1           TTCTATTTcACcAATGATGTTTCATTcTTgGCTCACCTTCAATG------GTTTGCcATG
Bat_coronavirus_(BtCoV/273/2005)      TTCTATTTTACTAATGATGTTTCATTTTTAGCTCACCTTCAATG------GTTTGCTATG
BtRf-BetaCoV/HeB2013                  TTCTATTTTACTAATGATGTTTCATTTTTAGCTCACCTTCAATG------GTTTGCTATG

SARS_CORONAVIRUS                      TacTCTggactaaaaCtaAaaGTGaagtcaaaaTTgTGagTAACAaCcAgTggTgTGTAc
Severe_acute_respiratory_syndrom      TTcaCa---------CCTtTaGTaCCT------TTCTGGATAACAattgcT--TATaTca
SARS_coronavirus_civet007             TTTTCT---------CCTATTGTGCCT------TTtTGGATAACAGCAATT--TATGTAT
SARS_coronavirus_GZ50                 TTTTCT---------CCTATTGTGCCT------TTtTGGATAACAGCAATc--TATGTAT
SARS_coronavirus_Taiwan_TC1           TTTTCT---------CCTATTGTGCCT------TTtTGGATAACAGCAATc--TATGTAT
Bat_coronavirus_(BtCoV/273/2005)      TTTTCT---------CCcATTGTGCCT------TTCTGGATAACAGCcATT--TATGTgT
BtRf-BetaCoV/HeB2013                  TTTTCT---------CCcATTGTGCCT------TTCTGGATAACAGCcATT--TATGTgT

SARS_CORONAVIRUS                      cCTtgATTgtTCTt-ttCACTGCaCtTTGGaaagtaacacctgagcaTTgTcTAACAACa
Severe_acute_respiratory_syndrom      TtTGTATTTCcacaAAGCAtTtC-tATTGG-----------------TTCTTTAgtAAtT
SARS_coronavirus_civet007             TCTGTATTTCTCTGAAGCACTGC-CATTGG-----------------TTCTTTAACAACT
SARS_coronavirus_GZ50                 TCTGTATTTCTCTGAAGCACTGC-CATTGG-----------------TTCTTTAACAACT
SARS_coronavirus_Taiwan_TC1           TCTGTATTTCTCTGAAGCACTGC-CATTGG-----------------TTCTTTAACAACT
Bat_coronavirus_(BtCoV/273/2005)      TCTGcATcTCctTGAAGCACTGC-CAcTGG-----------------TTCTTTAAtAACT
BtRf-BetaCoV/HeB2013                  TCTGcATcTCctTGAAGCACTGC-CAcTGG-----------------TTCTTTAAtAACT

SARS_CORONAVIRUS                      tCaaaAGGtGtAaAtTCATcTTcTAATaaAGcacTACccaATaTgGTACgTcCattcAta
Severe_acute_respiratory_syndrom      ACCTaAaGAGAcGtGTagTcTT-TAATGGtG--TTtC---cTTTAGTACtTTtGAaGAaG
SARS_coronavirus_civet007             AtCTTAGGAaAAGAGTCATGTT-TAATGGAG--TTAC---ATTTAGTACCTTCGAGGAGG
SARS_coronavirus_GZ50                 AtCTTAGGAaAAGAGTCATGTT-TAATGGAG--TTAC---ATTTAGTACCTTCGAGGAGG
SARS_coronavirus_Taiwan_TC1           AtCTTAGGAaAAGAGTCATGTT-TAATGGAG--TTAC---ATTTAGTACCTTCGAGGAGG
Bat_coronavirus_(BtCoV/273/2005)      ACCTTAaGAGAAGAGTCATGTT-TAATGGAG--TTAC---ATTTAGcACCTTtGAGGAGG
BtRf-BetaCoV/HeB2013                  ACCTTAaGAGAAGAGTCATGTT-TAATGGAG--TTAC---ATTTAGcACCTTtGAGGAGG

SARS_CORONAVIRUS                      CcatTTTGcaGTAatTcTTT--TaAtgAAGcAcAcaTAtCTAAAAcggcaattccagtTT
Severe_acute_respiratory_syndrom      CTGCgcTGT-GcACCTTTTTGtTaAAtAAaGAAATGTAtCTAAAg-------------TT
SARS_coronavirus_civet007             CTGCTTTGT-GTACCTTTTTGCTCAACAAGGAAATGTACCTAAAA-------------TT
SARS_coronavirus_GZ50                 CTGCTTTGT-GTACCTTTTTGCTCAACAAGGAAATGTACCTAAAA-------------TT
SARS_coronavirus_Taiwan_TC1           CTGCTTTGT-GTACCTTTTTGCTCAACAAGGAAATGTACCTAAAA-------------TT
Bat_coronavirus_(BtCoV/273/2005)      CTGCTTTaT-GTACCTTTTTaCTtAACAAGGAAATGTACCTcAAA-------------TT
BtRf-BetaCoV/HeB2013                  CTGCTTTaT-GTACCTTTTTaCTtAACAAGGAAATGTACCTcAAA-------------TT

SARS_CORONAVIRUS                      GaGcAGaaAGAggtcCTaGtatgTcA-ACAtggtcttGTgTtAgAGGTtCataaTTGtaC
Severe_acute_respiratory_syndrom      GCGTAGtGAtgtgCTaTTaCCtCTTACgCA-------aTATAAtAGaTAC---tTaGCTC
SARS_coronavirus_civet007             GCGTAGCGAGACACTgTTGCCACTTACACA-------GTATAACAGGTAt---CTTGCTC
SARS_coronavirus_GZ50                 GCGTAGCGAGACACTgTTGCCACTTACACA-------GTATAACAGGTAt---CTTGCTC
SARS_coronavirus_Taiwan_TC1           GCGTAGCGAGACACTgTTGCCACTTACACA-------GTATAACAGGTAt---CTTGCTC
Bat_coronavirus_(BtCoV/273/2005)      GCGTAGtGAGACACTCTTGCCACTTACACA-------GTAcAACAGGTAC---CTTGCTC
BtRf-BetaCoV/HeB2013                  GCGTAGtGAGACACTCTTGCCACTTACACA-------GTAcAACAGGTAC---CTTGCTC

SARS_CORONAVIRUS                      TtcATAgCcacaAgGTtaAAGTcaTTaAGaGttGtggTAaAT--------CgATtGaGAA
Severe_acute_respiratory_syndrom      TtTATAAt----AAGTACAAGTATTTtAGTGGAGCaaTgGATACAACtAGCTAcaGaGAA
SARS_coronavirus_civet007             TATATAAC----AAGTACAAGTATTTCAGTGGAGCCTTAGATACtACCAGCTATCGTGAA
SARS_coronavirus_GZ50                 TATATAAC----AAGTACAAGTATTTCAGTGGAGCCTTAGATACtACCAGCTATCGTGAA
SARS_coronavirus_Taiwan_TC1           TATATAAC----AAGTACAAGTATTTCAGTGGAGCCTTAGATACtACCAGCTATCGTGAA
Bat_coronavirus_(BtCoV/273/2005)      TcTATAAC----AAGTACAAGTATTTCAGTGGgGCCTTgGAcACAACCAGCTATCGTGAA
BtRf-BetaCoV/HeB2013                  TcTATAAt----AAGTACAAGTATTTCAGTGGgGCCTTgGAcACAACCAGtTATCGTGAA

SARS_CORONAVIRUS                      aCcaCcTGtctCCAtTTAtaacagcagcgtaCAAccaagCTAAAacatTaACTgTAaTAg
Severe_acute_respiratory_syndrom      GCtGCTTGtTGtCAtcTc------------GCAAAGGCTCTcAA----TGACTTcAGTAA
SARS_coronavirus_civet007             GCAGCTTGCTGCCACTTA------------GCAAAGGCTCTAAA----TGACTTTAGcAA
SARS_coronavirus_GZ50                 GCAGCTTGCTGCCACTTA------------GCAAAGGCTCTAAA----TGACTTTAGcAA
SARS_coronavirus_Taiwan_TC1           GCAGCTTGCTGCCACTTA------------GCAAAGGCTCTAAA----TGACTTTAGcAA
Bat_coronavirus_(BtCoV/273/2005)      GCAGCTTGCTGCCACTTA------------GCAAAGGCTCTtAA----TGACTTcAGTAA
BtRf-BetaCoV/HeB2013                  GCAGCTTGCTGCCACTTA------------GCAAAGGCTCTtAA----TGACTTcAGTAA

SARS_CORONAVIRUS                      tTgtgtccgtacCAGcTGCTtgTGcTgTtTgCCtgtCAaCA-AAAggTCcATaAaagtta
Severe_acute_respiratory_syndrom      CT----------CAGGTtCTGATGTTCTtTACCAACCACCACAAACcTCtATCA------
SARS_coronavirus_civet007             CT----------CAGGTGCTGATGTTCTCTACCAACCACCACAgACATCAATCA------
SARS_coronavirus_GZ50                 CT----------CAGGTGCTGATGTTCTCTACCAACCACCACAgACATCAATCA------
SARS_coronavirus_Taiwan_TC1           CT----------CAGGTGCTGATGTTCTCTACCAACCACCACAgACATCAATCA------
Bat_coronavirus_(BtCoV/273/2005)      CT----------CcGGTGCTGATGTcCTCTACCAACCACCACAAACtTCAATCA------
BtRf-BetaCoV/HeB2013                  CT----------CcGGTGCTGAcGTcCTCTACCAACCACCACAAACtTCAATCA------

SARS_CORONAVIRUS                      cCTTCTaagtcTgTGcCAGcaTGaacTc---cAgtTGGtAaTtCCaT-------------
Severe_acute_respiratory_syndrom      -CcTCaGCTGTTtTG-CAGAGTGGTTTTAGAAAAATGGCATTCCCaTCtGGtAAAGTTGA
SARS_coronavirus_civet007             -CTTCTGCTGTTCTG-CAGAGTGGTTTTAGgAAAATGGCATTCCCGTCAGGCAAAGTTGA
SARS_coronavirus_GZ50                 -CTTCTGCTGTTCTG-CAGAGTGGTTTTAGgAAAATGGCATTCCCGTCAGGCAAAGTTGA
SARS_coronavirus_Taiwan_TC1           -CTTCTGCTGTTCTG-CAGAGTGGTTTTAGgAAAATGGCATTCCCGTCAGGCAAAGTTGA
Bat_coronavirus_(BtCoV/273/2005)      -CaTCTGCaGTTtTG-CAGAGTGGTTTTAGAAAAATGGCATTCCCGTCtGGtAAAGTTGA
BtRf-BetaCoV/HeB2013                  -CaTCTGCaGTTtTG-CAGAGTGGTTTTAGAAgAATGGCATTCCCGTCtGGtAAgGTTGA

SARS_CORONAVIRUS                      -------ATGGTgCAtGTAACaaaaaGAgaCACAg-TCaTAAT---cTaTGtTaAaA---
Severe_acute_respiratory_syndrom      gGGtTGtATGGTACAAGTAACtTGTGGtACaACtACaCTTAAcGGtcTtTGGcTtGATGA
SARS_coronavirus_civet007             AGGGTGCATGGTACAAGTAACCTGTGGAACtACAACTCTTAATGGATTGTGGTTgGATGA
SARS_coronavirus_GZ50                 AGGGTGCATGGTACAAGTAACCTGTGGAACtACAACTCTTAATGGATTGTGGTTgGATGA
SARS_coronavirus_Taiwan_TC1           AGGGTGCATGGTACAAGTAACCTGTGGAACtACAACTCTTAATGGATTGTGGTTgGATGA
Bat_coronavirus_(BtCoV/273/2005)      AGGGTGCATGGTtCAAGTcACtTGTGGAACCACAACTCTTAAcGGATTGTGGTTAGATGA
BtRf-BetaCoV/HeB2013                  AGGGTGCATGGTtCAAGTtACtTGTGGAACCACAACTCTTAAcGGATTGTGGTTAGATGA

SARS_CORONAVIRUS                      -------------CCAAcAC-TacCAcaTGaACcattaAgGA-ATG---AAcCCTtAaTA
Severe_acute_respiratory_syndrom      CgtAGTtTACTGTCCAAGACATGTgATcTGCACctCtGAAGACATGCTTAAcCCTAAtTA
SARS_coronavirus_civet007             CACAGTATACTGTCCAAGACATGTCATTTGCACAGCAGAAGACATGCTTAATCCTAACTA
SARS_coronavirus_GZ50                 CACAGTATACTGTCCAAGACATGTCATTTGCACAGCAGAAGACATGCTTAATCCTAACTA
SARS_coronavirus_Taiwan_TC1           CACAGTATACTGTCCAAGACATGTCATTTGCACAGCAGAAGACATGCTTAATCCTAACTA
Bat_coronavirus_(BtCoV/273/2005)      CACAGTATAtTGTCCAAGACATGTtATTTGCACAGCAGAAGACATGCTTAATCCaAACTA
BtRf-BetaCoV/HeB2013                  CACAGTATAtTGTCCAAGACATGTtATTTGCACAGCAGAAGACATGCTTAATCCaAACTA

SARS_CORONAVIRUS                      gtgAaATtgggcctcataGCaCATTgGTAAAcaCcagatggtgAACCATtGt-------a
Severe_acute_respiratory_syndrom      TGAAGATtT---------aCTCATTCGTAAgTCt---------AAtCATAatTTCtTgGT
SARS_coronavirus_civet007             TGAAGATCT---------GCTCATTCGcAAATCC---------AACCATAGCTTtCTTGT
SARS_coronavirus_GZ50                 TGAAGATCT---------GCTCATTCGcAAATCC---------AACCATAGCTTtCTTGT
SARS_coronavirus_Taiwan_TC1           TGAAGATCT---------GCTCATTCGcAAATCC---------AACCATAGCTTtCTTGT
Bat_coronavirus_(BtCoV/273/2005)      TGAAGAcCT---------GCTCATcCGTAAgTCt---------AACCATAGCTTCCTTGT
BtRf-BetaCoV/HeB2013                  TGAAGAcCT---------GCTCATcCGTAAgTCt---------AACCATAGCTTCCTTGT

SARS_CORONAVIRUS                      aCAaGCTaaCAcTGaaaAAgTctGTccTg------gTTgaATGCgAacAAactTaTaCTT
Severe_acute_respiratory_syndrom      aCAGGCTGGtAATGTTCAACTcaGgGTTATTGGaCATTCTATGCAA--AATTGTgTaCTT
SARS_coronavirus_civet007             TCAGGCTGGCAATGTTCAACTTCGTGTTATTGGCCATTCTATGCAA--AATTGTCTGCTT
SARS_coronavirus_GZ50                 TCAGGCTGGCAATGTTCAACTTCGTGTTATTGGCCATTCTATGCAA--AATTGTCTGCTT
SARS_coronavirus_Taiwan_TC1           TCAGGCTGGCAATGTTCAACTTCGTGTTATTGGCCATTCTATGCAA--AATTGTCTGCTT
Bat_coronavirus_(BtCoV/273/2005)      cCAGGCTGGtAATGTcCAACTTCGTGTcATcGGCCATTCcATGCAA--AATTGTCTGCTT
BtRf-BetaCoV/HeB2013                  cCAGGCTGGtAATGTcCAACTTCGTGTcATcGGCCATTCcATGCAA--AATTGTCTGCTT

SARS_CORONAVIRUS                      AGGtgtCTTAggaTTGgctgTatcAACCtTAAG---CttAAGTAcAcAaTTtTgCaTAga
Severe_acute_respiratory_syndrom      AaG---CTTAAgGTTGATACagCcAAtCCTAAGACACCtAAGTATAAgTTTGTtCGcA--
SARS_coronavirus_civet007             AGG---CTTAAAGTTGATACTTCTAACCCTAAGACACCCAAGTATAAATTTGTCCGTA--
SARS_coronavirus_GZ50                 AGG---CTTAAAGTTGATACTTCTAACCCTAAGACACCCAAGTATAAATTTGTCCGTA--
SARS_coronavirus_Taiwan_TC1           AGG---CTTAAAGTTGATACTTCTAACCCTAAGACACCCAAGTATAAATTTGTCCGTA--
Bat_coronavirus_(BtCoV/273/2005)      AGG---CTTAAAGTTGATACcTCTAACCCTAAGACACCaAAGTATAAATTTGTCCGTA--
BtRf-BetaCoV/HeB2013                  AGG---CTTAAAGTTGATACcTCTAACCCTAAGACACCaAAGTATAAATTTGTCCGTA--

SARS_CORONAVIRUS                      atgTCCAAtaaccCtgaGTtgAACATTacCAGcCTgTAcCAaGaaAttATGaTTagaCtT
Severe_acute_respiratory_syndrom      ---TtCAA-----CCAGGaCAgACtTTTTCAGTgT-TAGCtTGtTACAATGGTTCACCAT
SARS_coronavirus_civet007             ---TCCAA-----CCtGGTCAAACATTTTCAGTtc-TAGCATGCTACAATGGTTCACCAT
SARS_coronavirus_GZ50                 ---TCCAA-----CCtGGTCAAACATTTTCAGTtc-TAGCATGCTACAATGGTTCACCAT
SARS_coronavirus_Taiwan_TC1           ---TCCAA-----CCtGGTCAAACATTTTCAGTtc-TAGCATGCTACAATGGTTCACCAT
Bat_coronavirus_(BtCoV/273/2005)      ---TCCAA-----CCAGGTCAgACATTTTCAGTCT-TAGCtTGtTACAATGGTTCACCAT
BtRf-BetaCoV/HeB2013                  ---TCCAA-----CCAGGTCAgACATTTTCAGTCT-TAGCtTGtTACAATGGTTCACCAT

SARS_CORONAVIRUS                      acGaatGaGTaaATC--TtcataATtAGggtTAAgCATgtCtTcAgAGGTgC--------
Severe_acute_respiratory_syndrom      CTG---GTGTTTAcCAaTGTGCtATGAGgCCcAATttcACtATTAAgGGTTCaTTCCTTA
SARS_coronavirus_civet007             CTG---GTGTTTATCAGTGTGCCATGAGACCTAATCATACCATTAAAGGTTCTTTCCTTA
SARS_coronavirus_GZ50                 CTG---GTGTTTATCAGTGTGCCATGAGACCTAATCATACCATTAAAGGTTCTTTCCTTA
SARS_coronavirus_Taiwan_TC1           CTG---GTGTTTATCAGTGTGCCATGAGACCTAATCATACCATTAAAGGTTCTTTCCTTA
Bat_coronavirus_(BtCoV/273/2005)      CaG---GaGTTTAcCAGTGTGCCATGAGACCTAActAcACCATTAAgGGTTCTTTCCTcA
BtRf-BetaCoV/HeB2013                  CaG---GaGTcTAcCAGTGTGCCATGAGACCTAActAcACCATTAAgGGTTCTTTCCTcA

SARS_CORONAVIRUS                      --aGATCAcaTGtcttggacaGTAaacTacGTcaTcAagccaAagAccgTTaaGTGTagT
Severe_acute_respiratory_syndrom      ATGGtTCATGTG---------GTAGTGTTGGTTTTAACATaGATTATGAcTGtGTcTCTT
SARS_coronavirus_civet007             ATGGATCATGTG---------GTAGTGTTGGTTTTAACATTGATTATGATTGCGTGTCTT
SARS_coronavirus_GZ50                 ATGGATCATGTG---------GTAGTGTTGGTTTTAACATTGATTATGATTGCGTGTCTT
SARS_coronavirus_Taiwan_TC1           ATGGATCATGTG---------GTAGTGTTGGTTTTAACATTGATTATGATTGCGTGTCTT
Bat_coronavirus_(BtCoV/273/2005)      ATGGgTCATGTG---------GTAGTGTTGGTTTTAACATTGAcTATGATTGCGTGTCcT
BtRf-BetaCoV/HeB2013                  ATGGgTCATGTG---------GTAGTGTTGGTTTTAACATTGAcTATGATTGCGTGTCcT

SARS_CORONAVIRUS                      TgTaCcAcAagttactTGtAcCATAc--AaCcctCAACtttaccagatgGGAaTgccatt
Severe_acute_respiratory_syndrom      TtTGtTAcA-------TGCAcCATATGGAatTaCCAAC----------tGGAGTt-----
SARS_coronavirus_civet007             TCTGCTATA-------TGCATCATATGGAGCTTCCAAC----------AGGAGTA-----
SARS_coronavirus_GZ50                 TCTGCTATA-------TGCATCATATGGAGCTTCCAAC----------AGGAGTA-----
SARS_coronavirus_Taiwan_TC1           TCTGCTATA-------TGCATCATATGGAGCTTCCAAC----------AGGAGTA-----
Bat_coronavirus_(BtCoV/273/2005)      TtTGCTATA-------TGCATCAcATGGAGCTTCCAAC----------AGGAGTA-----
BtRf-BetaCoV/HeB2013                  TtTGCTATA-------TGCATCAcATGGAGCTTCCAAC----------tGGAGTA-----

SARS_CORONAVIRUS                      tttctaaaacCACtCTGcaaAaCagCTgAGgtGaTAgAggTtTgTGG-----TgGTTGgt
Severe_acute_respiratory_syndrom      ----------CAtGCTG-GCACaGACTTAGAAGGTA-AcTTtTATGGaCCtTTTGTTGAC
SARS_coronavirus_civet007             ----------CACGCTG-GtACtGACTTAGAAGGTA-AATTCTATGGTCCATTTGTTGAC
SARS_coronavirus_GZ50                 ----------CACGCTG-GtACtGACTTAGAAGGTA-AATTCTATGGTCCATTTGTTGAC
SARS_coronavirus_Taiwan_TC1           ----------CACGCTG-GtACtGACTTAGAAGGTA-AATTCTATGGTCCATTTGTTGAC
Bat_coronavirus_(BtCoV/273/2005)      ----------CACGCTG-GCACCGACTTAGAAGGTA-AATTCTATGGTCCcTTTGTTGAC
BtRf-BetaCoV/HeB2013                  ----------CACGCTG-GCACCGACTTAGAAGGTA-AATTCTATGGTCCcTTTGTTGAC

SARS_CORONAVIRUS                      AaA-gAACatCAgAacCTG-AGtTACtGAagt--------CATTgAgaGccTTtGCgaG-
Severe_acute_respiratory_syndrom      AGgCAAACaGCACAaGCaGCtGGTACgGACACAACtATtACAgTtAATGTTTTaGCtTGG
SARS_coronavirus_civet007             AGACAAACTGCACAGGCTGCAGGTACAGACACAACCATAACATTAAATGTTTTGGCATGG
SARS_coronavirus_GZ50                 AGACAAACTGCACAGGCTGCAGGTACAGACACAACCATAACATTAAATGTTTTGGCATGG
SARS_coronavirus_Taiwan_TC1           AGACAAACTGCACAGGCTGCAGGTACAGACACAACCATAACATTAAATGTTTTGGCATGG
Bat_coronavirus_(BtCoV/273/2005)      AGACAAACTGCACAGGCTGCAGGcACAGACACAACCATtACATTgAAcGTTTTGGCtTGG
BtRf-BetaCoV/HeB2013                  AGACAAACTGCACAGGCTGCAGGcACAGACACAACCATtACATTgAAcGTTTTGGCtTGG

SARS_CORONAVIRUS                      -------------------ATGacaAcAaGcaGcTTCTctgTAGctagttgtATcCAttg
Severe_acute_respiratory_syndrom      tTGTAcGCTGCTGTTATaAATGGAGAcAGGTGGTTTCTcAATcG--------ATTtACCA
SARS_coronavirus_civet007             CTGTATGCTGCTGTTATCAATGGtGATAGGTGGTTTCTTAATAG--------ATTCACCA
SARS_coronavirus_GZ50                 CTGTATGCTGCTGTTATCAATGGtGATAGGTGGTTTCTTAATAG--------ATTCACCA
SARS_coronavirus_Taiwan_TC1           CTGTATGCTGCTGTTATCAATGGtGATAGGTGGTTTCTTAATAG--------ATTCACCA
Bat_coronavirus_(BtCoV/273/2005)      CTcTATGCTGCTGTTATtAATGGAGATAGaTGGTTcCTTAATAG--------gTTtACCA
BtRf-BetaCoV/HeB2013                  CTcTATGCTGCTGTTATtAATGGAGATAGaTGGTTcCTTAATAG--------gTTtACCA

SARS_CORONAVIRUS                      CTcCaCTaAAatACTTgtACtT-------ATtAtaaAgAgCTAaGtAtCTaTtAtAttgc
Severe_acute_respiratory_syndrom      CaACTCTtAATGACTTTAACCTTGTGGCtATGAAGTACAAtTATGAACCTCTaACACAAG
SARS_coronavirus_civet007             CTACTtTGAATGACTTTAACCTTGTGGCAATGAAGTACAACTATGAACCTtTGACACAAG
SARS_coronavirus_GZ50                 CTACTtTGAATGACTTTAACCTTGTGGCAATGAAGTACAACTATGAACCTtTGACACAAG
SARS_coronavirus_Taiwan_TC1           CTACTtTGAATGACTTTAACCTTGTGGCAATGAAGTACAACTATGAACCTtTGACACAAG
Bat_coronavirus_(BtCoV/273/2005)      CaACTCTGAATGAtTTTAACCTTGTGGCAATGAAaTACAACTATGAgCCaCTGACACAAG
BtRf-BetaCoV/HeB2013                  CaACTCTGAATGAtTTTAAtCTTGTGGCAATGAAaTACAACTATGAgCCaCTGACACAAG

SARS_CORONAVIRUS                      gTaA----GAggTAaTaGcACaTCacTacGCaactttagatacaTCAAcCAGGcAagtta
Severe_acute_respiratory_syndrom      AcCATGTTGACATACTaGGACCTCTTTCTGC-------------TCAAACtGGAATTGCC
SARS_coronavirus_civet007             ATCATGTTGACATAtTGGGACCTCTTTCTGC-------------TCAAACAGGAATTGCC
SARS_coronavirus_GZ50                 ATCATGTTGACATAtTGGGACCTCTTTCTGC-------------TCAAACAGGAATTGCC
SARS_coronavirus_Taiwan_TC1           ATCATGTTGACATAtTGGGACCTCTTTCTGC-------------TCAAACAGGAATTGCC
Bat_coronavirus_(BtCoV/273/2005)      ATCATGTTGACATACTGGGACCcCTTTCTGC-------------aCAAACAGGAATaGCt
BtRf-BetaCoV/HeB2013                  ATCATGTTGACATACTGGGACCTCTTTCTGC-------------aCAAACAGGAATaGCt

SARS_CORONAVIRUS                      aggTTAGATA---GcaCTctagTGtcAaAtCTaC-aaAcAATGGaATtAgcaGgatatCT
Severe_acute_respiratory_syndrom      GTtTTAGATATGTGTGCTtCaTTaAAAGAatTaCTGCAaAATGGTATGAATGGaCGTACc
SARS_coronavirus_civet007             GTCTTAGATATGTGTGCTGCTTTGAAAGAGCTGCTGCAGAATGGTATGAATGGTCGTACT
SARS_coronavirus_GZ50                 GTCTTAGATATGTGTGCTGCTTTGAAAGAGCTGCTGCAGAATGGTATGAATGGTCGTACT
SARS_coronavirus_Taiwan_TC1           GTCTTAGATATGTGTGCTGCTTTGAAAGAGCTGCTGCAGAATGGTATGAATGGTCGTACT
Bat_coronavirus_(BtCoV/273/2005)      GTCTTAGATATGTGTGCTGCTcTaAAAGAGCTtCTaCAGAATGGTATGAATGGTCGTACT
BtRf-BetaCoV/HeB2013                  GTCTTAGATATGTGTGCTGCTcTaAAAGAGCTtCTaCAGAATGGTATGAATGGTCGTACT

SARS_CORONAVIRUS                      ATC---GacAttgCaATTcc--AAaATagGcaTACACCATctgTGAatTTGTcAGAatgT
Severe_acute_respiratory_syndrom      ATatTgGGTAGtgCTtTaTTAGAAGATGAaTTTACACCtTT--TGATGTTGTTAGACAAT
SARS_coronavirus_civet007             ATCCTTGGTAGCACTATTTTAGAAGATGAGTTTACACCATT--TGATGTTGTTAGACAAT
SARS_coronavirus_GZ50                 ATCCTTGGTAGCACTATTTTAGAAGATGAGTTTACACCATT--TGATGTTGTTAGACAAT
SARS_coronavirus_Taiwan_TC1           ATCCTTGGTAGCACTATTTTAGAAGATGAGTTTACACCATT--TGATGTTGTTAGACAAT
Bat_coronavirus_(BtCoV/273/2005)      ATtCTTGGTAGCACTATTcTAGAAGATGAGTTTACgCCtTT--cGATGTTGTTAGACAAT
BtRf-BetaCoV/HeB2013                  ATtCTTGGTAGCACTATTcTAGAAGATGAGTTTACgCCtTT--cGATGTTGTTAGACAAT

SARS_CORONAVIRUS                      G---TGGcaTaAgaatagaataattCTTCtA------tTTtAtaAgctTTGTcactacAA
Severe_acute_respiratory_syndrom      GCTCaGGTGTTA------------CtTTCCAAaGTgcagTgAAaAgAAcaaT-----cAA
SARS_coronavirus_civet007             GCTCTGGTGTTA------------CCTTCCAAGGTAAGTTCAAGAAAATTGT-----TAA
SARS_coronavirus_GZ50                 GCTCTGGTGTTA------------CCTTCCAAGGTAAGTTCAAGAAAATTGT-----TAA
SARS_coronavirus_Taiwan_TC1           GCTCTGGTGTTA------------CCTTCCAAGGTAAGTTCAAGAAAATTGT-----TAA
Bat_coronavirus_(BtCoV/273/2005)      GtTCTGGTGTgA------------CtTTtCAAGGTAAGTTCAAGAAAATaGT-----TAA
BtRf-BetaCoV/HeB2013                  GtTCTGGTGTgA------------CtTTtCAAGGTAAGTTCAAGAAAATaGT-----TAA

SARS_CORONAVIRUS                      GGctgtgCATCATaGaA-----CTtcCaTTCT--ACATCA------------GcTtgAgG
Severe_acute_respiratory_syndrom      GGGtACaCAcCAcTGGtTGtTaCTcACaaTtTTGACtTCACTtTTAgTTtTAGTcCAgAG
SARS_coronavirus_civet007             GGGCACTCATCATTGGATGCTTtTAACTTTCTTGACATCACTATTgATTCTAGTTCAAAG
SARS_coronavirus_GZ50                 GGGCACTCATCATTGGATGCTTtTAACTTTCTTGACATCACTATTgATTCTtGTTCAAAG
SARS_coronavirus_Taiwan_TC1           GGGCACTCATCATTGGATGCTTtTAACTTTCTTGACATCACTATTgATTCTtGTTCAAAG
Bat_coronavirus_(BtCoV/273/2005)      GGGCACTCATCATTGGATGCTcCTtACTTTCTTGACATCACTtTTAATTCTcGTTCAAAG
BtRf-BetaCoV/HeB2013                  GGGCACTCATCATTGGATGCTcCTtACTTTCTTGACATCACTtTTAATTCTcGTTCAAAG

SARS_CORONAVIRUS                      TACACActtaatagctttaggGTtacCAaTGTcgtgaagaactgggaaTTTgTcTGcTaA
Severe_acute_respiratory_syndrom      TACtCA---------------aTGGTCttTGTT---------------cTTtTTTtTgTA
SARS_coronavirus_civet007             TACACA---------------GTGGTCACTGTT---------------TTTCTTTGTTTA
SARS_coronavirus_GZ50                 TACACA---------------GTGGTCACTGTT---------------TTTCTTTGTTTA
SARS_coronavirus_Taiwan_TC1           TACACA---------------GTGGTCACTGTT---------------TTTCTTTGTTTA
Bat_coronavirus_(BtCoV/273/2005)      TACACA---------------GTGGTCACTGTT---------------TTTCTTTGTTTA
BtRf-BetaCoV/HeB2013                  TACACA---------------GTGGTCACTGTT---------------TTTCTTTGTTTA

SARS_CORONAVIRUS                      TaAtgcaGCTTTaacaaccatgtgttgaacCTTtCtacaagccgCATTaAtctTcaGTtc
Severe_acute_respiratory_syndrom      TGAaAATGCcTT------------------tTTaC---------CtTTTgCTaTgGGTAT
SARS_coronavirus_civet007             cGAGAATGCTTT------------------CTTGC---------CATTTACTCTTGGTAT
SARS_coronavirus_GZ50                 cGAGAATGCTTT------------------CTTGC---------CATTTACTCTTGGTAT
SARS_coronavirus_Taiwan_TC1           cGAGAATGCTTT------------------CTTGC---------CATTTACTCTTGGTAT
Bat_coronavirus_(BtCoV/273/2005)      TGAGAATGCTTT------------------CTTGC---------CATTTACTtTTGGTAT
BtRf-BetaCoV/HeB2013                  TGAGAATGCTTT------------------CTTGC---------CATTTACTCTTGGTAT

SARS_CORONAVIRUS                      atcacCAATTataGgATaTtCaATagT-CcaGTCAAcacGCtTAAcaAaGCAcTCgTG--
Severe_acute_respiratory_syndrom      TATtGCtATgtCTGCtTtTGCaATGaTGtTTGTCAA---aCATAAGCAtGCATTtCTcTG
SARS_coronavirus_civet007             TATGGCAATTGCTGCATGTGCTATGCTGCTTGTtAA---GCATAAGCACGCATTCtTGTG
SARS_coronavirus_GZ50                 TATGGCAATTGCTGCATGTGCTATGCTGCTTGTtAA---GCATAAGCACGCATTCtTGTG
SARS_coronavirus_Taiwan_TC1           TATGGCAATTGCTGCATGTGCTATGCTGCTTGTtAA---GCATAAGCACGCATTCtTGTG
Bat_coronavirus_(BtCoV/273/2005)      TATGGCtATTGCTGCtTGTGCTATGCTtCTgGTCAA---GCATAAaCAtGCcTTCCTGTG
BtRf-BetaCoV/HeB2013                  TATGGCtATTGCTGCtTGTGCTATGCTtCTgGTCAA---GCATAAaCAtGCcTTCCTGTG

SARS_CORONAVIRUS                      ------------------------gACAGcTagacACcTagtcATGaT-TgCATcaCaaC
Severe_acute_respiratory_syndrom      tTTGTTTtTGTTACCTTCTCTTGCcACtGTaGCTTAtTTTAATATGGTCTAtATGCCTGC
SARS_coronavirus_civet007             CTTGTTTCTGTTACCTTCTCTTGCAACAGTTGCTTACTTTAATATGGTCTACATGCCTGC
SARS_coronavirus_GZ50                 CTTGTTTCTGTTACCTTCTCTTGCAACAGTTGCTTACTTTAATATGGTCTACATGCCTGC
SARS_coronavirus_Taiwan_TC1           CTTGTTTCTGTTACCTTCTCTTGCAACAGTTGCTTACTTTAATATGGTCTACATGCCTGC
Bat_coronavirus_(BtCoV/273/2005)      CTTGTTTCTGTTACCTTCTCTTGCAACAGTTGCTTAtTTcAATATGGTCTACATGCCTGC
BtRf-BetaCoV/HeB2013                  CTTGTTTCTaTTACCTTCTCTTGCAACAGTTGCTTAtTTcAATATGGTCTACATGCCTGC

SARS_CORONAVIRUS                      TAGCTa---cATGtGcATTAc--CATGGaCTTGAcaataCaGATcaTgGtTgcTtTGtag
Severe_acute_respiratory_syndrom      TAGtTGGGTGATGCGTATTATGACATGG-tTgGAtaTGGtTGATACTAGtTTGTCTGGTT
SARS_coronavirus_civet007             TAGCTGGGTGATGCGTATcATGACATGG-CTTGAATTGGCTGAcACTAGCTTGTCTGGTT
SARS_coronavirus_GZ50                 TAGCTGGGTGATGCGTATcATGACATGG-CTTGAATTGGCTGAcACTAGCTTGTCTGGTT
SARS_coronavirus_Taiwan_TC1           TAGCTGGGTGATGCGTATcATGACATGG-CTTGAATTGGCTGAcACTAGCTTGTCTGGTT
Bat_coronavirus_(BtCoV/273/2005)      TAGCTGGGTGATGCGTATTATGACATGG-CTcGAATTGGCTGATACTAGCTTGTCTGGTT
BtRf-BetaCoV/HeB2013                  TAGCTGGGTGATGCGTATTATGACATGG-CTcGAATTGGCTGATACTAGCTTGTCTGGTT

SARS_CORONAVIRUS                      gTtacCTgtAAaACcccaTTgT-TgaaCaTCAatcaTAa-AcgGaTTATagaCgTaA---
Severe_acute_respiratory_syndrom      tTAaGCTaAAAGACTGTGTTATGTATGCaTCAGCTgTAGTgTTaCTaATCCTtATGACAG
SARS_coronavirus_civet007             ATAGGCTTAAgGAtTGTGTTATGTATGCTTCAGCTTTAGTtTTGCTTATtCTCATGACAG
SARS_coronavirus_GZ50                 ATAGGCTTAAgGAtTGTGTTATGTATGCTTCAGCTTTAGTtTTGCTTATtCTCATGACAG
SARS_coronavirus_Taiwan_TC1           ATAGGCTTAAgGAtTGTGTTATGTATGCTTCAGCTTTAGTtTTGCTTATtCTCATGACAG
Bat_coronavirus_(BtCoV/273/2005)      ATcGGCTTAAAGACTGTGTTATGTATGCgTCAGCcTTAGTAcTaCTcAcCCTCATGACtG
BtRf-BetaCoV/HeB2013                  ATcGGCTTAAAGACTGTGTTATGTATGCgTCAGCcTTAGTAcTaCTcAcCCTCATGACtG

SARS_CORONAVIRUS                      -TCaaAtccaaTAgaATGATGCcaacAGGCataaGTGTcTGaAgCAgTG--GAAaagCAT
Severe_acute_respiratory_syndrom      CaaGaACTGTgTATGATGATGgTGCTAGGa----GaGTgTGGA-CACTtATGAATGTCtT
SARS_coronavirus_civet007             CTCGCACTGTTTATGATGATGCTGCTAGaC----GTGTTTGGA-CACTGATGAATGTCAT
SARS_coronavirus_GZ50                 CTCGCACTGTTTATGATGATGCTGCTAGaC----GTGTTTGGA-CACTGATGAATGTCAT
SARS_coronavirus_Taiwan_TC1           CTCGCACTGTTTATGATGATGCTGCTAGaC----GTGTTTGGA-CACTGATGAATGTCAT
Bat_coronavirus_(BtCoV/273/2005)      CTCGtACTGTcTATGATGATGCTGCTAGGC----GTGTaTGGA-CAtTGATGAATGTCAT
BtRf-BetaCoV/HeB2013                  CTCGtACTGTcTATGATGATGCTGCTAGGC----GTGTaTGGA-CAtTGATGAATGTCAT

SARS_CORONAVIRUS                      gtggCacGTcTATcAcaTagACaAcaGgtgcGC-TcAGgTC---CTATTTtCAcaaaata
Severe_acute_respiratory_syndrom      gACACTcGTTTATAAAGTtTAtTATGGTAATGCTTTAGATCAAGCcATTTCCATGTGGGC
SARS_coronavirus_civet007             TACACTTGTTTAcAAAGTCTACTATGGTAATGCTTTAGATCAAGCTATTTCCATGTGGGC
SARS_coronavirus_GZ50                 TACACTTGTTTAcAAAGTCTACTATGGTAATGCTTTAGATCAAGCTATTTCCATGTGGGC
SARS_coronavirus_Taiwan_TC1           TACACTTGTTTAcAAAGTCTACTATGGTAATGCTTTAGATCAAGCTATTTCCATGTGGGC
Bat_coronavirus_(BtCoV/273/2005)      TACACTTGTTTATAAAGTCTAtTATGGTAATtCcTTAGATCAAGCTATTTCCATGTGGGC
BtRf-BetaCoV/HeB2013                  TACACTTGTTTATAAAGTCTAtTATGGTAATtCcTTAGATCAAGCTATTTCCATGTGGGC

SARS_CORONAVIRUS                      CT---TcATagaTGTcAaCTCaAAgCcAT----GTGcCcaTAaGACaAatAcGacTcT-G
Severe_acute_respiratory_syndrom      tcTtaTaATcTCTGTtACtTCTAA-CTAcTCaGGTGTaGTTACaACTgTCATGTTTTTgG
SARS_coronavirus_civet007             CTTAGTTATTTCTGTAACCTCTAA-CTATTCTGGTGTCGTTACGACTATCATGTTTTTAG
SARS_coronavirus_GZ50                 CTTAGTTATTTCTGTAACCTCTAA-CTATTCTGGTGTCGTTACGACTATCATGTTTTTAG
SARS_coronavirus_Taiwan_TC1           CTTAGTTATTTCTGTAACCTCTAA-CTATTCTGGTGTCGTTACGACTATCATGTTTTTAG
Bat_coronavirus_(BtCoV/273/2005)      tcTtGTTATTTCTGTAACCTCTAA-CTATTCTGGTGTCGTTACGACTATCATGTTcTTAG
BtRf-BetaCoV/HeB2013                  tcTtGTTATTTCTGTAACCTCTAA-CTATTCTGGTGTCGTTACGACTATCATGTTcTTAG

SARS_CORONAVIRUS                      tcAGAGagA---TTTTTaaGTGTGTca---cTTAaCaTTTGTacAaTCtTTAtacGCAct
Severe_acute_respiratory_syndrom      CcAGAGgTATtGTTTTTaTGTGTGTTGAGTATTgCCCTaTtT-TcTTCATaACTGGtAAt
SARS_coronavirus_civet007             CTAGAGCTATAGTgTTTGTGTGTGTTGAGTATTACCCaTTGT-TATTtATTACTGGCAAC
SARS_coronavirus_GZ50                 CTAGAGCTATAGTgTTTGTGTGTGTTGAGTATTACCCaTTGT-TATTtATTACTGGCAAC
SARS_coronavirus_Taiwan_TC1           CTAGAGCTATAGTgTTTGTGTGTGTTGAGTATTAtCCaTTGT-TATTtATTACTGGCAAC
Bat_coronavirus_(BtCoV/273/2005)      CTAGAGCTATAGTTTTTGTGTGTGTTGAGTATTACCCTTTcT-TgTTCATTACTGGCAAC
BtRf-BetaCoV/HeB2013                  CTAGAGCTATAGTTTTTGTGTGTGTTGAGTATTACCCTTTcT-TgTTCATTACTGGCAAC

SARS_CORONAVIRUS                      ACaTTcCAagGaA--------GTcctTTGTacaTaAGtGgTATgaggTGTT--------T
Severe_acute_respiratory_syndrom      ACacTtCAGTGTATaATGCTaGTTTATTGTTTCTTAG-GCTAT----TtTTGtactTGtT
SARS_coronavirus_civet007             ACCTTACAGTGTATCATGCTTGTTTATTGTTTCTTAG-GCTAT----TGTTGCTGCTGCT
SARS_coronavirus_GZ50                 ACCTTACAGTGTATCATGCTTGTTTATTGTTTCTTAG-GCTAT----TGTTGCTGCTGCT
SARS_coronavirus_Taiwan_TC1           ACCTTACAGTGTATCATGCTTGTTTATTGTTTCTTAG-GCTAT----TGTTGCTGCTGCT
Bat_coronavirus_(BtCoV/273/2005)      ACCTTACAGTGTATtATGCTTGTcTATTGTTTCTTAG-GCTAT----TGTTGCTGCTGCT
BtRf-BetaCoV/HeB2013                  ACCTTACAGTGTATCATGCTTGTTTATTGTTTCTTAG-GCTAT----TGTTGCTGtTGCT

SARS_CORONAVIRUS                      AaaTTGatCTC-----------CAggCGgTggTTTAGcACTaACTCTgGaaaaaTcTGtA
Severe_acute_respiratory_syndrom      ACTTTGGCCTCTTtTGTTTACTCAACCGCTACTTTAG-ACTgACTCTTGGTGTTTATG-A
SARS_coronavirus_civet007             ACTTTGGCCTtTTCTGTTTACTCAACCGtTACTTcAG-gCTTACTCTTGGTGTTTATG-A
SARS_coronavirus_GZ50                 ACTTTGGCCTtTTCTGTTTACTCAACCGtTACTTcAG-gCTTACTCTTGGTGTTTATG-A
SARS_coronavirus_Taiwan_TC1           ACTTTGGCCTtTTCTGTTTACTCAACCGtTACTTcAG-gCTTACTCTTGGTGTTTATG-A
Bat_coronavirus_(BtCoV/273/2005)      ACTTTGGCCTCTTtTGTTTACTCAACCGCTACTTTAG-ACTTACTCTTGGTGTTTATG-A
BtRf-BetaCoV/HeB2013                  ACTTTGGCCTCTTtTGTTTACTCAACCGCTACTTTAG-ACTTACTCTTGGTGTTTATG-A

SARS_CORONAVIRUS                      tTAtTaGGTgTaTcaACAtaAccTgTAGGTAcAgcAACT-----aGGtTaacaCCTgtag
Severe_acute_respiratory_syndrom      tTACTTaGTtTCTACACAgGAgTT-TAGaTATATGAAtTCaCAGGGaCTacTcCCa----
SARS_coronavirus_civet007             CTACTTGGTCTCTACACAAGAATT-TAGGTATATGAACTCCCAGGGGCTTTTGCCT----
SARS_coronavirus_GZ50                 CTACTTGGTCTCTACACAAGAATT-TAGGTATATGAACTCCCAGGGGCTTTTGCCT----
SARS_coronavirus_Taiwan_TC1           CTACTTGGTCTCTACACAAGAATT-TAGGTATATGAACTCCCAGGGGCTTTTGCCT----
Bat_coronavirus_(BtCoV/273/2005)      CTAtTTGGTCTCcACACAgGAgTT-TAGaTATATGAACTCaCAaGGGCTTTTGCCa----
BtRf-BetaCoV/HeB2013                  CTAtTTGGTCTCcACACAgGAgTT-TAGaTATATGAACTCgCAaGGGCTTTTGCCa----

SARS_CORONAVIRUS                      aaaaaCCTAgctgtaaaggtAaAtTgGTAccaAcagcTTCtctagTAgCATgAcAccccT
Severe_acute_respiratory_syndrom      -----CCcA-----------AGAaTAGcATaGATGCcTTCAAaCTcAACATTAAATTGTT
SARS_coronavirus_civet007             -----CCTA-----------AGAGTAGTATTGATGCTTTCAAGCTTAACATTAAgTTGTT
SARS_coronavirus_GZ50                 -----CCTA-----------AGAGTAGTATTGATGCTTTCAAGCTTAACATTAAgTTGTT
SARS_coronavirus_Taiwan_TC1           -----CCTA-----------AGAGTAGTATTGATGCTTTCAAGCTTAACATTAAgTTGTT
Bat_coronavirus_(BtCoV/273/2005)      -----CCTA-----------AGAGTAGTATTGATGCaTTCAAGCTTAACATTAAATTGcT
BtRf-BetaCoV/HeB2013                  -----CCTA-----------AGAGTAGTATTGATGCaTTCAAGCTTAACATTAAATTGcT

SARS_CORONAVIRUS                      cGacATcGaAGccAAtCCATGcAc------------------------------------
Severe_acute_respiratory_syndrom      GGGTgTTGGtGGcAAACCtTGTATCAAAGTaGCcACTGTACAGTCTAAAATGTCaGAtGT
SARS_coronavirus_civet007             GGGTATTGGAGGTAAACCATGTATCAAgGTTGCTACTGTACAGTCTAAAATGTCTGACGT
SARS_coronavirus_GZ50                 GGGTATTGGAGGTAAACCATGTATCAAgGTTGCTACTGTACAGTCTAAAATGTCTGACGT
SARS_coronavirus_Taiwan_TC1           GGGTATTGGAGGTAAACCATGTATCAAgGTTGCTACTGTACAGTCTAAAATGTCTGACGT
Bat_coronavirus_(BtCoV/273/2005)      GGGcATTGGAGGaAAACCATGcATaAAAGTTGCTACTGTtCAGTCTAAAATGTCTGACGT
BtRf-BetaCoV/HeB2013                  GGGcATTGGAGGaAAACCATGcATaAAAGTTGCTACTGTtCAGTCTAAAATGTCTGACGT

SARS_CORONAVIRUS                      ---GTaCAtgTCTtatagctTctTCgCGGgTgaTaAACAtgTTAGgGTAa------Ccat
Severe_acute_respiratory_syndrom      AAAGTGCACATCaGTaGTctTACTCTCaGTTtTgCAACAACTcAGAGTAGAATCATCaTC
SARS_coronavirus_civet007             AAAGTGCACATCTGTGGTACTgCTCTCGGTTCTTCAACAACTTAGAGTAGAgTCATCTTC
SARS_coronavirus_GZ50                 AAAGTGCACATCTGTGGTACTgCTCTCGGTTCTTCAACAACTTAGAGTAGAgTCATCTTC
SARS_coronavirus_Taiwan_TC1           AAAGTGCACATCTGTGGTACTgCTCTCGGTTCTTCAACAACTTAGAGTAGAgTCATCTTC
Bat_coronavirus_(BtCoV/273/2005)      gAAGTGCACtTCTGTtGTACTACTtTCtGTTCTTCAACAACTTAGAGTAGAATCATCTTC
BtRf-BetaCoV/HeB2013                  gAAGTGCACtTCTGTtGTACTACTtTCtGTTCTTCAACAACTTAGAGTAGAATCATCTTC

SARS_CORONAVIRUS                      TAAcTTG--------------AtAATTC---------ATTtT--------AAaACcCA--
Severe_acute_respiratory_syndrom      TAAATTGTGGGCtCAATGTGTcCAgTTaCACAATGACATTCTctTaGCtAAAGAtACtAC
SARS_coronavirus_civet007             TAAATTGTGGGCACAATGTGTACAAcTCCACAATGAtATTCTTCTTGCAAAAGACACAAC
SARS_coronavirus_GZ50                 TAAATTGTGGGCACAATGTGTACAAcTCCACAATGAtATTCTTCTTGCAAAAGACACAAC
SARS_coronavirus_Taiwan_TC1           TAAATTGTGGGCACAATGTGTACAAcTCCACAATGAtATTCTTCTTGCAAAAGACACAAC
Bat_coronavirus_(BtCoV/273/2005)      TAAATTGTGGGCACAATGTGTgCAATTgCACAATGACATTtTatTgGCtAAAGACACAAC
BtRf-BetaCoV/HeB2013                  TAAATTGTGGGCACAATGTGTgCAATTgCACAATGACATTtTatTgGCtAAAGACACAAC

SARS_CORONAVIRUS                      --------TCatAgAGATGagTctTCTaTaGgtcaTgTcctTAggtATGCcaGGTa-TGT
Severe_acute_respiratory_syndrom      TGAAGCCTTtGAAAAaATGGTTTCaCTacTtTCTGTTTTGCTtTCCATGCAGGGTGCTGT
SARS_coronavirus_civet007             TGAAGCtTTCGAgAAGATGGTTTCTCTTTTGTCTGTTTTGCTATCCATGCAGGGTGCTGT
SARS_coronavirus_GZ50                 TGAAGCtTTCGAgAAGATGGTTTCTCTTTTGTCTGTTTTGCTATCCATGCAGGGTGCTGT
SARS_coronavirus_Taiwan_TC1           TGAAGCtTTCGAgAAGATGGTTTCTCTTTTGTCTGTTTTGCTATCCATGCAGGGTGCTGT
Bat_coronavirus_(BtCoV/273/2005)      TGAAGCCTTtGAAAAGATGGTTTCTCTTcTGTCTGTTcTGCTATCtATGCAaGGTGCTGT
BtRf-BetaCoV/HeB2013                  TGAAGCCTTtGAAAAGATGGTTTCTCTTcTGTCTGTTcTGCTATCtATGCAaGGTGCTGT

SARS_CORONAVIRUS                      caACAc--------------------------ATAAaC--------CTTCAG--------
Severe_acute_respiratory_syndrom      AGACATaAACAAGCTtTGtGAaGAAATGCTgGAcAACaGgGCaACCtTaCAaGCTATaGC
SARS_coronavirus_civet007             AGACATTAAtAgGtTGTGCGAGGAAATGCTCGATAACCGTGCTACtCTTCAGGCTATTGC
SARS_coronavirus_GZ50                 AGACATTAAtAgGtTGTGCGAGGAAATGCTCGATAACCGTGCTACtCTTCAGGCTATTGC
SARS_coronavirus_Taiwan_TC1           AGACATTAAtAgGtTGTGCGAGGAAATGCTCGATAACCGTGCTACtCTTCAGGCTATTGC
Bat_coronavirus_(BtCoV/273/2005)      AGACATcAACAAaCTGTGCGAGGAAATGCTCGAcAACCGcGCTACCCTgCAGGCTATTGC
BtRf-BetaCoV/HeB2013                  AGACATcAACAAaCTGTGCGAGGAAATGCTCGAcAACCGcGCTACCCTgCAGGCTATTGC

SARS_CORONAVIRUS                      TTttGAATTTAG------------------------TGtCAacaCTgAGGtgtgtAGGtg
Severe_acute_respiratory_syndrom      cTCAGAgTTTAGTTCccTtCCATCATATGCaGCTTtTGCtACTGCTCAaG-----AaGCt
SARS_coronavirus_civet007             TTCAGAATTTAGTTCTTTACCATCATATGCCGCTTATGCCACTGCcCAGG-----AGGCC
SARS_coronavirus_GZ50                 TTCAGAATTTAGTTCTTTACCATCATATGCCGCTTATGCCACTGCcCAGG-----AGGCC
SARS_coronavirus_Taiwan_TC1           TTCAGAATTTAGTTCTTTACCATCATATGCCGCTTATGCCACTGCcCAGG-----AGGCC
Bat_coronavirus_(BtCoV/273/2005)      TTCAGAATTTAGTTCTTTACCATCATATGCtGCcTATGCtACaGCTCAaG-----AGGCt
BtRf-BetaCoV/HeB2013                  TTCAGAATTTAGTTCTTTACCATCATATGCtGCcTATGCtACaGCTCAaG-----AGGCt

SARS_CORONAVIRUS                      ccTGtGtAGGaTGTAaCccA--GTGATT-----acCtTaCTacAAtctTTAAAGAgtcCT
Severe_acute_respiratory_syndrom      TATGAGCAGGCTGTtGCTAATGGTGATTCTGAAGTtGTTCTtAAAAAGTTgAAGAAgTCT
SARS_coronavirus_civet007             TATGAGCAGGCTGTAGCTAATGGTGATTCTGAAGcCGTTCTCAAAAAGTTAAAGAAATCT
SARS_coronavirus_GZ50                 TATGAGCAGGCTGTAGCTAATGGTGATTCTGAAGTCGTTCTCAAAAAGTTAAAGAAATCT
SARS_coronavirus_Taiwan_TC1           TATGAGCAGGCTGTAGCTAATGGTGATTCTGAAGTCGTTCTCAAAAAGTTAAAGAAATCT
Bat_coronavirus_(BtCoV/273/2005)      TATGAGCAGGCTGTAGCaAATGGTGATTCTGAAGTtGTTCTtAAAAAGTTAAAGAAATCT
BtRf-BetaCoV/HeB2013                  TATGAGCAGGCgGTAGCaAATGGTGATTCTGAAGTtGTTCTtAAAAAGTTAAAGAAATCT

SARS_CORONAVIRUS                      ---------GtTAcATtT---TcaGcttGTaAaGtTGCCAcatTcCtACGTggaaTttcA
Severe_acute_respiratory_syndrom      TTGAATGTGGCTAAATCTGAaTTTGACCGTGATGCaGCCA---TGCAACGTAAGTTGGAA
SARS_coronavirus_civet007             TTGAATGTGGCTAAATCTGAGTTTGACCGTGATGCTGCCA---TGCAACGcAAGTTGGAA
SARS_coronavirus_GZ50                 TTGAATGTGGCTAAATCTGAGTTTGACCGTGATGCTGCCA---TGCAACGcAAGTTGGAA
SARS_coronavirus_Taiwan_TC1           TTGAATGTGGCTAAATCTGAGTTTGACCGTGATGCTGCCA---TGCAACGcAAGTTGGAA
Bat_coronavirus_(BtCoV/273/2005)      TTGAATGTGGCTAAATCTGAGTTTGACCGTGATGCTGCCA---TGCAACGTAAGTTGGAg
BtRf-BetaCoV/HeB2013                  TTGAATGTGGCTAAATCTGAGTTTGACCGTGATGCTGCCA---TGCAACGTAAGTTGGAg

SARS_CORONAVIRUS                      AgacTtGtAaATtgcaactTGtCatAAAgGTctCtAtCAGaCA-----------------
Severe_acute_respiratory_syndrom      AAGATGGCtGATCAaGCTATGACCCAAATGTA-tAAACAGGCtAGATCTGAGGACAAGAG
SARS_coronavirus_civet007             AAGATGGCAGATCAGGCTATGACCCAAATGTA-CAAACAGGCAAGATCTGAGGACAAGAG
SARS_coronavirus_GZ50                 AAGATGGCAGATCAGGCTATGACCCAAATGTA-CAAACAGGCAAGATCTGAGGACAAGAG
SARS_coronavirus_Taiwan_TC1           AAGATGGCAGATCAGGCTATGACCCAAATGTA-CAAACAGGCAAGATCTGAGGACAAGAG
Bat_coronavirus_(BtCoV/273/2005)      AAGATGGCgGATCAGGCTATGACCCAAATGTA-CAAACAGGCAAGATCTGAaGACAAGAG
BtRf-BetaCoV/HeB2013                  AAGATGGCgGAcCAGGCTATGACCCAAATGTA-CAAACAGGCAAGATCTGAaGACAAGAG

SARS_CORONAVIRUS                      -----------------tTATGCAAAgtATGC--cTactTtTGCTctGGtAa--------
Severe_acute_respiratory_syndrom      GGCAAAAGTtACTAGTGCTATGCAgACAATGCTtTTCACTATGCTTAGaAAGtTgGATAA
SARS_coronavirus_civet007             GGCAAAAGTAACTAGTGCTATGCAAACAATGCTCTTCACTATGCTTAGGAAGCTTGATAA
SARS_coronavirus_GZ50                 GGCAAAAGTAACTAGTGCTATGCAAACAATGCTCTTCACTATGCTTAGGAAGCTTGATAA
SARS_coronavirus_Taiwan_TC1           GGCAAAAGTAACTAGTGCTATGCAAACAATGCTCTTCACTATGCTTAGGAAGCTTGATAA
Bat_coronavirus_(BtCoV/273/2005)      GGCAAAAGTtACTAGTGCaATGCAgACAATGCTtTTCACTATGCTTAGGAAGCTaGATAA
BtRf-BetaCoV/HeB2013                  GGCAAAAGTtACTAGTGCaATGCAgACAATGCTtTTCACTATGCTTAGGAAGCTaGATAA

SARS_CORONAVIRUS                      ---------TAgCAACATTAaatctgTttACAtTaCAaGaGtgaGcTGTttcagtgGTTt
Severe_acute_respiratory_syndrom      TGATGCACTcAACAACATTA------TCAACAATGCAaGaGATGGTTGT-------GTTC
SARS_coronavirus_civet007             TGATGCACTTAACAACATTA------TCAACAATGCgCGTGATGGTTGT-------GTTC
SARS_coronavirus_GZ50                 TGATGCACTTAACAACATTA------TCAACAATGCgCGTGATGGTTGT-------GTTC
SARS_coronavirus_Taiwan_TC1           TGATGCACTTAACAACATTA------TCAACAATGCgCGTGATGGTTGT-------GTTC
Bat_coronavirus_(BtCoV/273/2005)      TGATGCACTTAACAACATTA------TCAACAATGCACGTGATGGTTGT-------GTaC
BtRf-BetaCoV/HeB2013                  TGATGCACTTAACAACATTA------TCAAtAATGCACGTGATGGTTGT-------GTaC

SARS_CORONAVIRUS                      gAgTgAAtATgAcA-------------tAGtCAtAtTC--------TGagCCctgTgATG
Severe_acute_respiratory_syndrom      CctTgAACATaATACCtCTtACAACAGCAGCCAAACTaATGGTTGTcaTACCaGAcTATa
SARS_coronavirus_civet007             CACTCAACATCATACCAtTGACtACAGCAGCCAAACTCATGGTTGTTGTcCCTGATTATG
SARS_coronavirus_GZ50                 CACTCAACATCATACCAtTGACtACAGCAGCCAAACTCATGGTTGTTGTcCCTGATTATG
SARS_coronavirus_Taiwan_TC1           CACTCAACATCATACCAtTGACtACAGCAGCCAAACTCATGGTTGTTGTcCCTGATTATG
Bat_coronavirus_(BtCoV/273/2005)      CACTCAACATCATACCACTtACAACAGCAGCtAAACTCATGGTTGTTGTACCTGATTATG
BtRf-BetaCoV/HeB2013                  CACTCAACATCATACCACTtACAACAGCAGCtAAACTtATGGTTGTTGTACCTGATTATG

SARS_CORONAVIRUS                      a-AtCaACA-----gtTTGaGtTGGTagtcccAAaAtCTTTg---AgGCtaCaGCAtTCT
Severe_acute_respiratory_syndrom      acACaTAtAAaAAtACgTGTGATGGT------AcaACaTTTACtTATGCATCaGCAtTgT
SARS_coronavirus_civet007             GTACCTACAAGAACACTTGTGATGGT------AACACCTTTACATATGCATCTGCACTCT
SARS_coronavirus_GZ50                 GTACCTACAAGAACACTTGTGATGGT------AACACCTTTACATATGCATCTGCACTCT
SARS_coronavirus_Taiwan_TC1           GTACCTACAAGAACACTTGTGATGGT------AACACCTTTACATATGCATCTGCACTCT
Bat_coronavirus_(BtCoV/273/2005)      GaACCTACAAGAAtACTTGTGATGGT------AACACtTTTACATATGCATCTGCtCTCT
BtRf-BetaCoV/HeB2013                  GaACCTACAAGAAtACTTGTGATGGT------AACACtTTTACATATGCATCTGCtCTCT

SARS_CORONAVIRUS                      GtGAAtT---atAAGgTG-------AaATAaagAcAgctTTtctCcaAGcagggTTAcgT
Severe_acute_respiratory_syndrom      GGGAAATCCAaCAgGTTGTaGATGCAGATAGtAAAATTGTTCAACTTAGTGAAATTA-gT
SARS_coronavirus_civet007             GGGAAATCCAGCAAGTTGTTGATGCgGATAGCAAgATTGTTCAACTTAGTGAAATTA-Ac
SARS_coronavirus_GZ50                 GGGAAATCCAGCAAGTTGTTGATGCgGATAGCAAgATTGTTCAACTTAGTGAAATTA-Ac
SARS_coronavirus_Taiwan_TC1           GGGAAATCCAGCAAGTTGTTGATGCgGATAGCAAgATTGTTCAACTTAGTGAAATTA-Ac
Bat_coronavirus_(BtCoV/273/2005)      GGGAAATtCAGCAAGTTGTTGATGCAGATAGtAAAATTGTcCcgCTTAGTGAAATTA-AT
BtRf-BetaCoV/HeB2013                  GGGAAATtCAGCAAGTTGTTGATGCAGATAGtAAAATTGTcCcgCTTAGTGAAATTA-AT

SARS_CORONAVIRUS                      gTaaggAATTCtcttACCAcgccTAttTgTGGCCTgTTA--aTTgCAGaTgaAAcatcat
Severe_acute_respiratory_syndrom      ATGGACAATTC----ACCtAATTTAGCa-TGGCCTCTTATTGTaACAGCTtTAA------
SARS_coronavirus_civet007             ATGGACAATTC----ACCAAATTTgGCT-TGGCCTCTTATTGTTACAGCTCTAA------
SARS_coronavirus_GZ50                 ATGGACAATTC----ACCAAATTTgGCT-TGGCCTCTTATTGTTACAGCTCTAA------
SARS_coronavirus_Taiwan_TC1           ATGGACAATTC----ACCAAATTTgGCT-TGGCCTCTTATTGTTACAGCTCTAA------
Bat_coronavirus_(BtCoV/273/2005)      ATGGAtAATTC----ACCAAATcTAGCT-TGGCCTCTTATTGTTACtGCaCTAA------
BtRf-BetaCoV/HeB2013                  ATGGAtAATTC----ACCAAATcTAGCT-TGGCCTCTTATTGTTACtGCaCTAA------

SARS_CORONAVIRUS                      gcGtGatAACaCcctTaTaAAACatTttAaAgcAtTGAgCTGAtT----TgtCttT----
Severe_acute_respiratory_syndrom      --GgGCCAAtTCtGCTGTCAAAt--TACAGAATAATGAgCTtAGTCCtGTtGCACTACGA
SARS_coronavirus_civet007             --GAGCCAACTCAGCTGTtAAAC--TACAGAATAATGAACTGAGTCCAGTAGCACTACGA
SARS_coronavirus_GZ50                 --GAGCCAACTCAGCTGTtAAAC--TACAGAATAATGAACTGAGTCCAGTAGCACTACGA
SARS_coronavirus_Taiwan_TC1           --GAGCCAACTCAGCTGTtAAAC--TACAGAATAATGAACTGAGTCCAGTAGCACTACGA
Bat_coronavirus_(BtCoV/273/2005)      --GAGCCAACTCAGCTGTCAAAC--TACAGAATAATGAACTGAGTCCAGTAGCACTACGA
BtRf-BetaCoV/HeB2013                  --GAGCCAACTCAGCTGTCAAAC--TACAGAATAATGAACTGAGTCCAGTAGCACTACGA

SARS_CORONAVIRUS                      ---ATGTgCTtTaaGctTatTAtCAtAaacCAAAgcaCTcacAgTGtcaACAAT------
Severe_acute_respiratory_syndrom      CAGATGTCtTGTGCtGCcGGTACtACA---CAAACtGCTTGcACTGATGACAATGCgtTa
SARS_coronavirus_civet007             CAGATGTCCTGTGCGGCTGGTACCACA---CAAACAGCTTGTACTGATGACAATGCACTT
SARS_coronavirus_GZ50                 CAGATGTCCTGTGCGGCTGGTACCACA---CAAACAGCTTGTACTGATGACAATGCACTT
SARS_coronavirus_Taiwan_TC1           CAGATGTCCTGTGCGGCTGGTACCACA---CAAACAGCTTGTACTGATGACAATGCACTT
Bat_coronavirus_(BtCoV/273/2005)      CAGATGTCtTGTGCaGCTGGTACtACA---CAAACAGCTTGTACTGATGACAATGCACTT
BtRf-BetaCoV/HeB2013                  CAGATGTCtTGTGCaGCTGGTACtACA---CAAACAGCTTGTACTGATGACAATGCACTT

SARS_CORONAVIRUS                      --------------TTCagcaGGA----------------CAacgCcgaCAagttcCgAg
Severe_acute_respiratory_syndrom      GCtTACTAcAACAcaaCaAAGGGAGGTAGGTTTGTaCTtGCAcTgtTATCcGAtttaCAg
SARS_coronavirus_civet007             GCCTACTATAACAATTCGAAGGGAGGTAGGTTTGTGCTGGCATTACTATCAGACCACCAA
SARS_coronavirus_GZ50                 GCCTACTATAACAATTCGAAGGGAGGTAGGTTTGTGCTGGCATTACTATCAGACCACCAA
SARS_coronavirus_Taiwan_TC1           GCCTACTATAACAATTCGAAGGGAGGTAGGTTTGTGCTGGCATTACTATCAGACCACCAA
Bat_coronavirus_(BtCoV/273/2005)      GCCTAtTAcAACAAcTCtAAGGGAGGTAGGTTTGTGCTGGCATTACTATCAGACCAtCAA
BtRf-BetaCoV/HeB2013                  GCCTAtTATAACAAcTCtAAGGGAGGTAGGTTTGTGCTtGCATTACTATCAGACCAtCAA

SARS_CORONAVIRUS                      GAaCatgtcTGGaCctaTAGtTTtCaTAAG-------------------TcTACACActG
Severe_acute_respiratory_syndrom      GATtTgAAATGGGC---TAGATTCCCTAAGAGTGATGGAACtGGTACtATcTAtACA--G
SARS_coronavirus_civet007             GATCTCAAATGGGC---TAGATTCCCTAAGAGTGATGGtACAGGTACAATTTACACA--G
SARS_coronavirus_GZ50                 GATCTCAAATGGGC---TAGATTCCCTAAGAGTGATGGtACAGGTACAATTTACACA--G
SARS_coronavirus_Taiwan_TC1           GATCTCAAATGGGC---TAGATTCCCTAAGAGTGATGGtACAGGTACAATTTACACA--G
Bat_coronavirus_(BtCoV/273/2005)      GATCTCAAgTGGGC---TAGATTCCCTAAGAGTGAcGGAACAGGTACtATTTAtACA--G
BtRf-BetaCoV/HeB2013                  GATCTCAAgTGGGC---TAGATTCCCTAAGAGTGAcGGAACAGGTACtATTTAtACA--G

SARS_CORONAVIRUS                      AAtTGaAAtattCTgGT------------------tCtAgtGtGCCcttAGTtaGcAATg
Severe_acute_respiratory_syndrom      AACTGGAACCACCTTGTAGGTTTGTTACAGACACACCtAAAGGtCCTAAAGT--GAAgTA
SARS_coronavirus_civet007             AACTGGAACCACCTTGTAGGTTTGTTACAGACACACCAAAAGGGCCTAAAGT--GAAATA
SARS_coronavirus_GZ50                 AACTGGAACCACCTTGTAGGTTTGTTACAGACACACCAAAAGGGCCTAAAGT--GAAATA
SARS_coronavirus_Taiwan_TC1           AACTGGAACCACCTTGTAGGTTTGTTACAGACACACCAAAAGGGCCTAAAGT--GAAATA
Bat_coronavirus_(BtCoV/273/2005)      AACTGGAACCACCTTGTAGGTTTGTTACAGACACcCCAAAAGGaCCTAAAGT--GAAATA
BtRf-BetaCoV/HeB2013                  AACTGGAACCACCTTGTAGGTTcGTTACAGACACcCCAAAAGGaCCTAAAGT--GAAATA

SARS_CORONAVIRUS                      tgcGTggTgCAggtAA---TTgAgCAgggtCgccAATgtAcacATaGTGCTtaGCAcgTa
Severe_acute_respiratory_syndrom      tTTaTACTTtATtAAAGGaTTAAACAA---CCTAAATAGAGGTATGGTaCTtGGtAGTTT
SARS_coronavirus_civet007             CTTGTACTTCATCAAAGGCTTAAACAA---CCTAAATAGAGGTATGGTGCTGGGCAGTTT
SARS_coronavirus_GZ50                 CTTGTACTTCATCAAAGGCTTAAACAA---CCTAAATAGAGGTATGGTGCTGGGCAGTTT
SARS_coronavirus_Taiwan_TC1           CTTGTACTTCATCAAAGGCTTAAACAA---CCTAAATAGAGGTATGGTGCTGGGCAGTTT
Bat_coronavirus_(BtCoV/273/2005)      CTTGTAtTTCATtAAgGGCTTAAACAA---CCTAAATAGAGGTATGGTatTGGGCAGTTT
BtRf-BetaCoV/HeB2013                  CTTGTAtTTCATtAAgGGCcTAAACAA---CCTAAATAGAGGTATGGTatTGGGCAGTTT

SARS_CORONAVIRUS                      AtCTGgcAttGacaacacTCAaatcatAAtTtgtgGCcAttGAAaTttCatCaAAgaCAA
Severe_acute_respiratory_syndrom      AGCTGCcACAGTACGTCTaCAaGCTGGtAAT----GCAACAGAAGTgCCTGCCAATTCAA
SARS_coronavirus_civet007             AGCTGCTACAGTACGTCTTCAGGCTGGAAAT----GCtACAGAAGTACCTGCCAATTCAA
SARS_coronavirus_GZ50                 AGCTGCTACAGTACGTCTTCAGGCTGGAAAT----GCtACAGAAGTACCTGCCAATTCAA
SARS_coronavirus_Taiwan_TC1           AGCTGCTACAGTACGTCTTCAGGCTGGAAAT----GCtACAGAAGTACCTGCCAATTCAA
Bat_coronavirus_(BtCoV/273/2005)      AGCTGCTACAGTACGTCTTCAGGCTGGtAAT----GCAACtGAAGTgCCaGCCAAcTCAA
BtRf-BetaCoV/HeB2013                  AGCTGCTACAGTACGTCTTCAGGCTGGtAAT----GCAACtGAAGTgCCaGCCAAcTCAA

SARS_CORONAVIRUS                      CTaTatcTgC------TGtcgTctCAGgcaATgCattTAcAGtAcAaAAGacaTACtgtt
Severe_acute_respiratory_syndrom      CTGTatTaTCtTTCTGTGCTTTTGCtGTAGATgCTGCTAAAGCtTACAAaGATTAtCTAG
SARS_coronavirus_civet007             CTGTGCTTTCCTTCTGTGCTTTTGCAGTAGAcCCTGCTAAAGCATAtAAGGATTACCTAG
SARS_coronavirus_GZ50                 CTGTGCTTTCCTTCTGTGCTTTTGCAGTAGAcCCTGCTAAAGCATAtAAGGATTACCTAG
SARS_coronavirus_Taiwan_TC1           CTGTGCTTTCCTTCTGTGCTTTTGCAGTAGAcCCTGCTAAAGCATAtAAGGATTACCTAG
Bat_coronavirus_(BtCoV/273/2005)      CTGTGCTTTCtTTCTGcGCcTTTGCtGTtGATCCaGCTAAAGCATACAAaGATTACCTAt
BtRf-BetaCoV/HeB2013                  CTGTGCTTTCtTTCTGcGCcTTTGCtGTtGATCCaGCTAAAGCATACAAaGATTACCTAt

SARS_CORONAVIRUS                      CtAaTGttGaAt------TCACtttgAaTtTaTcAAaAcacTcTacACgagCAC--GTgC
Severe_acute_respiratory_syndrom      CtAGTGGgGGACAACCAATCAC--tAAtTGTGTtAAGATGTTGTGTACACACACTGGTAC
SARS_coronavirus_civet007             CAAGTGGAGGACAACCAATCAC--CAACTGTGTGAAGATGTTGTGTACACACACTGGTAC
SARS_coronavirus_GZ50                 CAAGTGGAGGACAACCAATCAC--CAACTGTGTGAAGATGTTGTGTACACACACTGGTAC
SARS_coronavirus_Taiwan_TC1           CAAGTGGAGGACAACCAATCAC--CAACTGTGTGAAGATGTTGTGTACACACACTGGTAC
Bat_coronavirus_(BtCoV/273/2005)      CAAGTGGAGGACAACCAATCAC--CAAtTGcGTGAAGATGcTGTGcACACACACTGGTAC
BtRf-BetaCoV/HeB2013                  CAAGTGGAGGACAACCAATCAC--CAAtTGcGTGAAGATGcTGTGcACACACACTGGTAC

SARS_CORONAVIRUS                      AGGt---atAATT-CTactACAtttatCtAtAgGCaAATAT-------------TTTaaT
Severe_acute_respiratory_syndrom      tGGtCAGGCAATaACaGTtACA-----CCgGAAGCCAATATGGAtCAAGAaTCCTTTGGT
SARS_coronavirus_civet007             AGGACAGGCAATTACTGTAACA-----CCAGAAGCtAAcATGGACCAAGAGTCCTTTGGT
SARS_coronavirus_GZ50                 AGGACAGGCAATTACTGTAACA-----CCAGAAGCtAAcATGGACCAAGAGTCCTTTGGT
SARS_coronavirus_Taiwan_TC1           AGGACAGGCAATTACTGTAACA-----CCAGAAGCtAAcATGGACCAAGAGTCCTTTGGT
Bat_coronavirus_(BtCoV/273/2005)      AGGACAGGCAATTACcGTAACA-----CCcGAAGCCAATATGGAtCAAGAGTCCTTTGGT
BtRf-BetaCoV/HeB2013                  AGGACAGGCAATTACcGTAACA-----CCcGAAGCCAATATGGAtCAAGAGTCCTTTGGT

SARS_CORONAVIRUS                      GccttcTCAcaTaG--TGcATcaacagcGgCAtgagagCaAgCtgtATaC------AcTa
Severe_acute_respiratory_syndrom      GGTGCaTCgTGTTGTCTGTAcTGccGtTGCCACATaGAtCATCCAAATCCTAAAGGATTt
SARS_coronavirus_civet007             GGTGCTTCATGTTGTCTGTATTGTAGATGCCACATTGACCATCCAAATCCTAAAGGATTC
SARS_coronavirus_GZ50                 GGTGCTTCATGTTGTCTGTATTGTAGATGCCACATTGACCATCCAAATCCTAAAGGATTC
SARS_coronavirus_Taiwan_TC1           GGTGCTTCATGTTGTCTGTATTGTAGATGCCACATTGACCATCCAAATCCTAAAGGATTC
Bat_coronavirus_(BtCoV/273/2005)      GGTGCTTCATGTTGTCTGTATTGTAGATGCCACATTGAtCATCCAAATCCTAAgGGATTt
BtRf-BetaCoV/HeB2013                  GGTGCTTCATGTTGTCTGTATTGTAGATGCCACATTGAtCATCCAAATCCTAAgGGATTt

SARS_CORONAVIRUS                      TGcGAgcaGAAgGGTAg-------tAgAgAgCTA-------gGCcAATagCaaAaTGacT
Severe_acute_respiratory_syndrom      TGTGACTTaAAAGGTAAGTAtGTaCAAATACCTACaACTTGTGCTAATGACCCtGTGGGT
SARS_coronavirus_civet007             TGTGACTTGAAAGGTAAGTACGTCCAAATACCTACCACTTGTGCTAATGACCCAGTGGGT
SARS_coronavirus_GZ50                 TGTGACTTGAAAGGTAAGTACGTCCAAATACCTACCACTTGTGCTAATGACCCAGTGGGT
SARS_coronavirus_Taiwan_TC1           TGTGACTTGAAAGGTAAGTACGTCCAAATACCTACCACTTGTGCTAATGACCCAGTGGGT
Bat_coronavirus_(BtCoV/273/2005)      TGTGACcTGAAAGGTAAGTAtGTtCAAATACCTACCACcTGTGCTAATGACCCAGTGGGT
BtRf-BetaCoV/HeB2013                  TGTGACcTGAAAGGTAAGTAtGTtCAAATACCTACCACcTGTGCTAATGACCCAGTGGGT

SARS_CORONAVIRUS                      cTTAC---------------CaGTACCaggtgGTCcctGGAgTGTaGAAtacTTtTGcaT
Severe_acute_respiratory_syndrom      TTTACACTTAaAAACACAGTCTGTACC-----GTCTGCGGtATGTGGAAAGGTTATGGCT
SARS_coronavirus_civet007             TTTACACTTAGAAACACAGTCTGTACC-----GTCTGCGGAATGTGGAAAGGTTATGGCT
SARS_coronavirus_GZ50                 TTTACACTTAGAAACACAGTCTGTACC-----GTCTGCGGAATGTGGAAAGGTTATGGCT
SARS_coronavirus_Taiwan_TC1           TTTACACTTAGAAACACAGTCTGTACC-----GTCTGCGGAATGTGGAAAGGTTATGGCT
Bat_coronavirus_(BtCoV/273/2005)      TTcACACTTAGAAACACAGTCTGTACt-----GTCTGCGGAATGTGGAAAGGTTATGGtT
BtRf-BetaCoV/HeB2013                  TTcACACTTAGAAACACAGTCTGTACt-----GTCTGCGGAATGTGGAAAGGTTATGGCT

SARS_CORONAVIRUS                      ---------ACCAACcttttGAtaatTTGcaaCAttGctaGaaaActCATCtgaGaTaTT
Severe_acute_respiratory_syndrom      GTAGTTGTGAtCAACTCCGCGAACCCaTGcTtCA--GTCaGCtGATGCAcaAtCGTTTTT
SARS_coronavirus_civet007             GTAGTTGTGACCAACTCCGCGAACCCTTGATGCA--GTCTGCGGATGCATCAACGTTTTT
SARS_coronavirus_GZ50                 GTAGTTGTGACCAACTCCGCGAACCCTTGATGCA--GTCTGCGGATGCATCAACGTTTTT
SARS_coronavirus_Taiwan_TC1           GTAGTTGTGACCAACTCCGCGAACCCTTGATGCA--GTCTGCGGATGCATCAACGTTTTT
Bat_coronavirus_(BtCoV/273/2005)      GTAGTTGTGACCAACTCCGCGAACCCaTGATGCA--GTCgGCGGATGCgTCAcCGTTTTT
BtRf-BetaCoV/HeB2013                  GTAGTTGTGAtCAACTCCGCGAACCCaTGATGCA--GTCTGCGGATGCgTCAgCGTTTTT

SARS_CORONAVIRUS                      ----GaGTgTtgGGTaTAAGc-CAGtaatTCTaACAtaGTGCtcttgtGGCACTAGTgta
Severe_acute_respiratory_syndrom      AAACGGGTTTGCGGTGTAAGTGCAGCCCGTCTTACACCGTGCGGCACAGGCACTAGTACT
SARS_coronavirus_civet007             AAACGGGTTTGCGGTGTAAGTGCAGCCCGTCTTACACCGTGCGGCACAGGCACTAGTACT
SARS_coronavirus_GZ50                 AAACGGGTTTGCGGTGTAAGTGCAGCCCGTCTTACACCGTGCGGCACAGGCACTAGTACT
SARS_coronavirus_Taiwan_TC1           AAACGGGTTTGCGGTGTAAGTGCAGCCCGTCTTACACCGTGCGGCACAGGCACTAGTACT
Bat_coronavirus_(BtCoV/273/2005)      AAACGGGTTTGCGGTGTAAGTGCAGCCCGTCTTACACCGTGCGGCACAGGCACTAGcACT
BtRf-BetaCoV/HeB2013                  AAACGGGTTTGCGGTGTAAGTGCAGCCCGTCTTACACCGTGCGGCACAGGCACTAGcACT

SARS_CORONAVIRUS                      GgTG-CactTAatGGcaTTactgTATgT-----------GaTGtcaGcacaaaAtAaTca
Severe_acute_respiratory_syndrom      GATGTCGTaTACAGGGCTTTTGAcATcTACAAtGAtAAAGTaGCTGGTTTTGCtAAaTTC
SARS_coronavirus_civet007             GATGTCGTCTACAGGGCTTTTGATATTTACAACGAAAAAGTTGCTGGTTTTGCAAAGTTC
SARS_coronavirus_GZ50                 GATGTCGTCTACAGGGCTTTTGATATTTACAACGAAAAAGTTGCTGGTTTTGCAAAGTTC
SARS_coronavirus_Taiwan_TC1           GATGTCGTCTACAGGGCTTTTGATATTTACAACGAAAAAGTTGCTGGTTTTGCAAAGTTC
Bat_coronavirus_(BtCoV/273/2005)      GATGTCGTtTACAGGGCTTTTGAcATcTACAACGAAAAgGTTGCTGGTTTTGCAAAGTTC
BtRf-BetaCoV/HeB2013                  GATGTCGTtTACAGGGCTTTTGATATTTACAACGAAAAgGTTGCTGGTTTTGCAAAGTTC

SARS_CORONAVIRUS                      CcAAcAttTAATTtgtaaGtTGTtGtacCtcGGtaAAcaAc-AGcAtcaccatAGtCAcc
Severe_acute_respiratory_syndrom      CTAAAAACTAATT-----GtTGTCGCTTCCAaGAaAAGGAcGAaGA-------tGaCAAT
SARS_coronavirus_civet007             CTAAAAACTAATT-----GCTGTCGCTTCCAGGAGAAGGATGAGGA-------AGGCAAT
SARS_coronavirus_GZ50                 CTAAAAACTAATT-----GCTGTCGCTTCCAGGAGAAGGATGAGGA-------AGGCAAT
SARS_coronavirus_Taiwan_TC1           CTAAAAACTAATT-----GCTGTCGCTTCCAGGAGAAGGATGAGGA-------AGGCAAT
Bat_coronavirus_(BtCoV/273/2005)      CTAAAAACTAATT-----GCTGcCGaTTCCAGGAGAAGGATGAGGA-------AGGCAAT
BtRf-BetaCoV/HeB2013                  CTAAAAACTAATT-----GCTGcCGaTTCCAaGAGAAGGATGAaGA-------AGGCAAT

SARS_CORONAVIRUS                      TTtTTcaAaggtgtactCTCcTA-TTTGTAcTT--------TACTgTtTtTAgtTACacg
Severe_acute_respiratory_syndrom      TTAaTtGA---------tTCTTACTTTGTAGTTAAGAGACAcACTtTcTCTAACTAC---
SARS_coronavirus_civet007             TTATTAGA---------CTCTTACTTTGTAGTTAAGAGgCATACTATGTCTAACTAC---
SARS_coronavirus_GZ50                 TTATTAGA---------CTCTTACTTTGTAGTTAAGAGgCATACTATGTCTAACTAC---
SARS_coronavirus_Taiwan_TC1           TTATTAGA---------CTCTTACTTTGTAGTTAAGAGgCATACTATGTCTAACTAC---
Bat_coronavirus_(BtCoV/273/2005)      TTAaTAGA---------CTCTTAtTTcGTAGTTAAGAGACATACTATGTCcAACTAC---
BtRf-BetaCoV/HeB2013                  TTAaTAGA---------CTCTTAtTTcGTAGTTAAGAGACATACTATGTCcAACTAC---

SARS_CORONAVIRUS                      atAACcaGtAaAGAC-----ATAAtTTcGGTTAAgtGgTgGTCtAGgtttaCcaTTtCaa
Severe_acute_respiratory_syndrom      -CAACATGAAGAaACaATTTATAAtTT-acTTAAg-GATTGTCCAG-----CtGTTGCTa
SARS_coronavirus_civet007             -CAACATGAAGAGACTATTTATAACTT-GGTTAAA-GATTGTCCAG-----CgGTTGCTG
SARS_coronavirus_GZ50                 -CAACATGAAGAGACTATTTATAACTT-GGTTAAA-GATTGTCCAG-----CgGTTGCTG
SARS_coronavirus_Taiwan_TC1           -CAACATGAAGAGACTATTTATAACTT-GGTTAAA-GATTGTCCAG-----CgGTTGCTG
Bat_coronavirus_(BtCoV/273/2005)      -CAgCATGAAGAGgCTATTTAcAACTT-GcTTAAA-GAgTGcCCAG-----CtGTTGCTG
BtRf-BetaCoV/HeB2013                  -CAgCATGAAGAGgCTATTTAcAACTT-GcTTAAA-GAgTGcCCAG-----CtGTTGCTG

SARS_CORONAVIRUS                      TaCAaG----cacCAAGgTcAcgG-----GGTGtCATGtTttCAacTtTgTtAtagGTgA
Severe_acute_respiratory_syndrom      aaCATGACTTcTTtAAGTTTAGAaTAGAcGGTGACATGGTACCACATATATCAC--GTCA
SARS_coronavirus_civet007             TCCATGACTTTTTCAAGTTTAGAGTAGATGGTGACATGGTACCACATATATCAC--GTCA
SARS_coronavirus_GZ50                 TCCATGACTTTTTCAAGTTTAGAGTAGATGGTGACATGGTACCACATATATCAC--GTCA
SARS_coronavirus_Taiwan_TC1           TCCATGACTTTTTCAAGTTTAGAGTAGATGGTGACATGGTACCACATATATCAC--GTCA
Bat_coronavirus_(BtCoV/273/2005)      TgCATGACTTTTTCAAGTTTAGAGTAGATGGTGACATGGTACCACATATATCAC--GTCA
BtRf-BetaCoV/HeB2013                  TgCATGACTTTTTCAAGTTTAGAGTAGATGGTGACATGGTACCACATATATCAC--GTCA

SARS_CORONAVIRUS                      GCaTaTAgtTAttacaACtATcGCcag-------TAactTCTAtGTCAgaTTGATG-tGa
Severe_acute_respiratory_syndrom      aCGTCTtACTAAATACACAATGGCAGACcTcGTCTATGCTtTAaGgCATTTTGATGAaGG
SARS_coronavirus_civet007             GCGTCTAACTAAATACACAATGGCtGAtTTAGTCTATGCgCTACGTCATTTTGATGAGGG
SARS_coronavirus_GZ50                 GCGTCTAACTAAATACACAATGGCtGAtTTAGTCTATGCTCTACGTCATTTTGATGAGGG
SARS_coronavirus_Taiwan_TC1           GCGTCTAACTAAATACACAATGGCtGAtTTAGTCTATGCTCTACGTCATTTTGATGAGGG
Bat_coronavirus_(BtCoV/273/2005)      aCGTCTAACTAAgTACACAATGGCAGACTTAGTCTATGCTCTACGTCATTTTGAcGAGGG
BtRf-BetaCoV/HeB2013                  aCGTCTAACTAAgTACACAATGGCAGACTTAGTCTATGCTCTACGTCATTTTGAcGAGGG

SARS_CORONAVIRUS                      cAATT-TaAgACATTcAAcaAcATctTtagtttctaCaTCtgaatcaACAaACccTTGCc
Severe_acute_respiratory_syndrom      TAATTGTGACACATTAAAAGAAATACT---------tGTC-------ACATACAATTGtT
SARS_coronavirus_civet007             TAATTGTGAtACATTAAAAGAAATACT---------CGTC-------ACgTACAATTGCT
SARS_coronavirus_GZ50                 TAATTGTGAtACATTAAAAGAAATACT---------CGTC-------ACATACAATTGCT
SARS_coronavirus_Taiwan_TC1           TAATTGTGAtACATTAAAAGAAATACT---------CGTC-------ACATACAATTGCT
Bat_coronavirus_(BtCoV/273/2005)      cAATTGTGACACATTAAAgGAAATACT---------CGTC-------ACATACAATTGtT
BtRf-BetaCoV/HeB2013                  cAATTGTGACACATTAAAgGAAATACT---------CGTC-------ACATACAATTGtT

SARS_CORONAVIRUS                      GaGcTGcTGA----------AAtAAaagTaGaTAaGACaTTGTctAAggaC---ACATtc
Severe_acute_respiratory_syndrom      GTGATGATGATTATTTCAATAAaAAGGAcTGGTATGAtTTTGTAGAAAAcCCaGAtATaT
SARS_coronavirus_civet007             GTGATGATGATTATTTCAATAAGAAGGATTGGTATGACTTcGTAGAgAATCCTGACATCT
SARS_coronavirus_GZ50                 GTGATGATGATTATTTCAATAAGAAGGATTGGTATGACTTcGTAGAgAATCCTGACATCT
SARS_coronavirus_Taiwan_TC1           GTGATGATGATTATTTCAATAAGAAGGATTGGTATGACTTcGTAGAgAATCCTGACATCT
Bat_coronavirus_(BtCoV/273/2005)      GTGgTGAcGATTATTTCAATAAGAAGGATTGGTATGACTTTGTAGAAAATCCTGACATCc
BtRf-BetaCoV/HeB2013                  GTGATGAcGATTATTTCAATAAGAAGGATTGGTATGACTTTGTAGAAAAcCCTGACATCc

SARS_CORONAVIRUS                      TttGCa-------------AGtTcAGCtTcTg---CAgTtgcaAcTAgtG-tTtTgagtT
Severe_acute_respiratory_syndrom      TACGCGTATAcGCcAACTTAGGTGAaCGTGTACGCCAAgCtTTgTTAAAaACaGTACAAT
SARS_coronavirus_civet007             TACGCGTATATGCTAACTTAGGTGAGCGTGTACGCCAATCATTATTAAAGACTGTACAAT
SARS_coronavirus_GZ50                 TACGCGTATATGCTAACTTAGGTGAGCGTGTACGCCAATCATTATTAAAGACTGTACAAT
SARS_coronavirus_Taiwan_TC1           TACGCGTATATGCTAACTTAGGTGAGCGTGTACGCCAATCATTATTAAAGACTGTACAAT
Bat_coronavirus_(BtCoV/273/2005)      TgCGCGTATATGCaAACcTtGGTGAGCGTGTACGtCAAgCtTTATTAAAGACTGTgCAAT
BtRf-BetaCoV/HeB2013                  TgCGCGTATATGCaAACcTtGGTGAGCGTGTACGtCAAgCtTTATTAAAGACTGTgCAAT

SARS_CORONAVIRUS                      TtTcCatTGgTAcGttaaAaGttGa---TGaAaaCGTAtTaACgTaAG--cATCAaacAT
Severe_acute_respiratory_syndrom      TCTGtGATGCcATGCGaaATGCtGGtATTGTtGGtGTACTGACATTAGATAATCAaG-AT
SARS_coronavirus_civet007             TCTGCGATGCTATGCGTGATGCAGGCATTGTAGGCGTACTGACATTAGATAATCAGG-AT
SARS_coronavirus_GZ50                 TCTGCGATGCTATGCGTGATGCAGGCATTGTAGGCGTACTGACATTAGATAATCAGG-AT
SARS_coronavirus_Taiwan_TC1           TCTGCGATGCTATGCGTGATGCAGGCATTGTAGGCGTACTGACATTAGATAATCAGG-AT
Bat_coronavirus_(BtCoV/273/2005)      TCTGCGATGCcATGCGcGATGCgGGCATcGTAGGtGTACTGACAcTAGATAATCAGG-AT
BtRf-BetaCoV/HeB2013                  TCTGCGATGCcATGCGcGATGCgGGtATcGTAGGtGTACTGACAcTAGATAATCAGG-AT

SARS_CORONAVIRUS                      tTTAActGcAACTtccgCacTaTCaccaAcaTCagACActaatgcctgatctAGTAaCAg
Severe_acute_respiratory_syndrom      CTcAATGGtAACTGGTAtGATTTCGGTGATTTCaTACA--------------AaccaCg-
SARS_coronavirus_civet007             CTTAATGGGAACTGGTACGATTTCGGTGATTTCGTACA--------------AGTAGCA-
SARS_coronavirus_GZ50                 CTTAATGGGAACTGGTACGATTTCGGTGATTTCGTACA--------------AGTAGCA-
SARS_coronavirus_Taiwan_TC1           CTTAATGGGAACTGGTACGATTTCGGTGATTTCGTACA--------------AGTAGCA-
Bat_coronavirus_(BtCoV/273/2005)      CTgAATGGGAACTGGTACGATTTtGGTGATTTCGTgCA--------------AGTAGCA-
BtRf-BetaCoV/HeB2013                  CTgAATGGGAACTGGTACGATTTCGGTGATTTCGTgCA--------------AGTAGCA-

SARS_CORONAVIRUS                      tatAGGtTGacacataagcTgaCTgTaGTaaAcagAcgcTgaTt-TTGCaGATGatTcTt
Severe_acute_respiratory_syndrom      -CCAGGtaG-----tGGAGTTCCTgTTGTaGATTCtTATTAtTCATTGtTaATGCCTATa
SARS_coronavirus_civet007             -CCAGGCTG-----CGGAGTTCCTATTGTGGATTCATATTACTCATTGCTGATGCCcATC
SARS_coronavirus_GZ50                 -CCAGGCTG-----CGGAGTTCCTATTGTGGATTCATATTACTCATTGCTGATGCCcATC
SARS_coronavirus_Taiwan_TC1           -CCAGGCTG-----CGGAGTTCCTATTGTGGATTCATATTACTCATTGCTGATGCCcATC
Bat_coronavirus_(BtCoV/273/2005)      -CCAGGCTG-----CGGAGTTCCTATTGTGGATTCATAcTAtTCtTTGCTGATGCCTATt
BtRf-BetaCoV/HeB2013                  -CCAGGCTG-----CGGAGTTCCTATTGTGGATTCATAcTAtTCtTTGCTGATGCCTATt

SARS_CORONAVIRUS                      CaCAtTTTGA--------TTtaCcatcaAaaaCtATA---ACatTaATag-GCAAtgAAC
Severe_acute_respiratory_syndrom      tTaACcTTGACcAGGGCtTTAaCTGCaGAGTCaCATgTtGACaCTGActTaaCAA--AgC
SARS_coronavirus_civet007             CTCACTTTGACtAGaGCATTgGCTGCTGAGTCCCATATGGAtGCTGATCTCGCAA--AAC
SARS_coronavirus_GZ50                 CTCACTTTGACtAGGGCATTgGCTGCTGAGTCCCATATGGAtGCTGATCTCGCAA--AAC
SARS_coronavirus_Taiwan_TC1           CTCACTTTGACtAGGGCATTgGCTGCTGAGTCCCATATGGAtGCTGATCTCGCAA--AAC
Bat_coronavirus_(BtCoV/273/2005)      CTCACacTaACgAGGGCtTTAGCTGCTGAGTCCCATATGGACGCTGATCTCaCAA--AAC
BtRf-BetaCoV/HeB2013                  CTCACacTaACgAGGGCtTTAGCTGCTGAGTCCCATATGGACGCTGATCTCaCAA--AAC

SARS_CORONAVIRUS                      C-----TTtAGTGttATTaGCTctcagGttgTcTaAgTTaACaaAatgAGAGAGAgaaTG
Severe_acute_respiratory_syndrom      CttaCATTAAGTGGGATTTGtT-----aAAATATGACTTcACGGA---AGAGAGgtTaaa
SARS_coronavirus_civet007             CACTtATTAAGTGGGATTTGCT-----GAAATATGAtTTTACGGA---AGAGAGACTTTG
SARS_coronavirus_GZ50                 CACTtATTAAGTGGGATTTGCT-----GAAATATGAtTTTACGGA---AGAGAGACTTTG
SARS_coronavirus_Taiwan_TC1           CACTtATTAAGTGGGATTTGCT-----GAAATATGAtTTTACGGA---AGAGAGACTTTG
Bat_coronavirus_(BtCoV/273/2005)      CACTCATTAAGTGGGATTTGtT-----GAAATATGACTTTACGGA---AGAGAGACTcTG
BtRf-BetaCoV/HeB2013                  CACTCATTAAGTGGGATTTGtT-----GAAATATGACTTTACGGA---AGAGAGACTcTG

SARS_CORONAVIRUS                      TCTtTca-----------TAAgTcTTttGACCAGcttTAtCA----AAgT----------
Severe_acute_respiratory_syndrom      aCTCTTtGACCGTTATTTTAAATATTGGGAtCAGACATACCACCCaAATTGTgTTAACTG
SARS_coronavirus_civet007             TCTCTTCGACCGTTATTTTAAATATTGGGACCAGACATACCAtCCCAATTGTATTAACTG
SARS_coronavirus_GZ50                 TCTCTTCGACCGTTATTTTAAATATTGGGACCAGACATACCAtCCCAATTGTATTAACTG
SARS_coronavirus_Taiwan_TC1           TCTCTTCGACCGTTATTTTAAATATTGGGACCAGACATACCAtCCCAATTGTATTAACTG
Bat_coronavirus_(BtCoV/273/2005)      TCTCTTCGACCGTTAcTTTAAATATTGGGAtCAGACATACCACCCCAATTGTAccAACTG
BtRf-BetaCoV/HeB2013                  TCTCTTCGACCGTTAcTTTAAATATTGGGAtCAGACATACCACCCCAATTGTATTAACTG

SARS_CORONAVIRUS                      ----aAaGATgGaTGgAaCC-------------------------ATTcTtcACTGTaac
Severe_acute_respiratory_syndrom      TTTGGATGAcAGaTGcATtCTgCATTGTGCAAACTTTAATGTtTTATTcTCTACaGTGTT
SARS_coronavirus_civet007             TTTGGATGATAGGTGTATCCTTCATTGcGCAAACTTTAATGTGTTATTTTCTACTGTGTT
SARS_coronavirus_GZ50                 TTTGGATGATAGGTGTATCCTTCATTGTGCAAACTTTAATGTGTTATTTTCTACTGTGTT
SARS_coronavirus_Taiwan_TC1           TTTGGATGATAGGTGTATCCTTCATTGTGCAAACTTTAATGTGTTATTTTCTACTGTGTT
Bat_coronavirus_(BtCoV/273/2005)      TTTGGATGATAGGTGTATCCTcCATTGTGCAAACTTTAATGTaTTgTTTTCTACTGTGTT
BtRf-BetaCoV/HeB2013                  TTTGGATGATAGGTGTATCCTcCATTGTGCAAACTTTAATGTaTTgTTTTCTACTGTGTT

SARS_CORONAVIRUS                      aCtAtCaACgA-TgTaaGAagACTgGTcAGtAggATtTaT--------TGgTCtTTTaaa
Severe_acute_respiratory_syndrom      CCCACCTACAAGTTTTGGACCACTAGTgAGAAAAATATTTGTtGATGGTGTTCCaTT---
SARS_coronavirus_civet007             tCCACCTACAAGTTTTGGACCACTAGTAAGAAAAATATTTGTAGATGGTGTTCCTTT---
SARS_coronavirus_GZ50                 tCCACCTACAAGTTTTGGACCACTAGTAAGAAAAATATTTGTAGATGGTGTTCCTTT---
SARS_coronavirus_Taiwan_TC1           tCCACCTACAAGTTTTGGACCACTAGTAAGAAAAATATTTGTAGATGGTGTTCCTTT---
Bat_coronavirus_(BtCoV/273/2005)      CCCACCTACAAGcTTTGGACCAtTAGTAAGgAAAATATTTGTAGATGGTGTaCCTTT---
BtRf-BetaCoV/HeB2013                  CCCACCTACAAGcTTTGGACCAtTAGTAAGgAAAATATTTGTAGATGGTGTaCCTTT---

SARS_CORONAVIRUS                      cTGTaGTgaCAAgTctcTcgCAacTTCaTcAcTaaTAaatGTacTACcagcaCAGaATGT
Severe_acute_respiratory_syndrom      -TGTaGTTTCAACTGGATACCAcTTcaGaGAGc--TAGGtGTtGTACATAATCAGGATGT
SARS_coronavirus_civet007             -TGTTGTTTCAACTGGATACCATTTTCGTGAGT--TAGGAGTCGTACATAATCAGGATGT
SARS_coronavirus_GZ50                 -TGTTGTTTCAACTGGATACCATTTTCGTGAGT--TAGGAGTCGTACATAATCAGGATGT
SARS_coronavirus_Taiwan_TC1           -TGTTGTTTCAACTGGATACCATTTTCGTGAGT--TAGGAGTCGTACATAATCAGGATGT
Bat_coronavirus_(BtCoV/273/2005)      -TGTTGTTTCAACgGGtTACCATTTcCGTGAGT--TAGGAGTtGTACATAATCAGGATGT
BtRf-BetaCoV/HeB2013                  -TGTTGTTTCAACaGGtTACCATTTcCGTGAGT--TAGGAGTtGTACATAATCAGGATGT

SARS_CORONAVIRUS                      AtcacAAtTaACAcAatTCcaaTtgtgtAGTTTgcAaaAgCcTTTA----cctCcatTag
Severe_acute_respiratory_syndrom      A----AACTTACATAGCTCtaGa--CTtAGTTTtAAGGAAtTacTtGTGTATGCTGCTGA
SARS_coronavirus_civet007             A----AACTTACATAGCTCGCGT--CTCAGTTTCAAGGAACTTTTAGTGTATGCTGCTGA
SARS_coronavirus_GZ50                 A----AACTTACATAGCTCGCGT--CTCAGTTTCAAGGAACTTTTAGTGTATGCTGCTGA
SARS_coronavirus_Taiwan_TC1           A----AACTTACATAGCTCGCGT--CTCAGTTTCAAGGAACTTTTAGTGTATGCTGCTGA
Bat_coronavirus_(BtCoV/273/2005)      A----AACTTACATAGCTCaCGT--CTCAGTTTtAAGGAACTTTTAGTGTATGCcGCTGA
BtRf-BetaCoV/HeB2013                  A----AACTTACATAGCTCaCGT--CTCAGTTTtAAGGAACTTTTAGTGTATGCcGCTGA

SARS_CORONAVIRUS                      CatAGacATaaAaGgAcCTTCTaaCA--ccATTa----AcAAtaGttgTACATtCgacTC
Severe_acute_respiratory_syndrom      CCCtGCTATGCAcGCtGCTTCTGGtAATcTATTaCTAGATAAACGCACTACgTGCTTTTC
SARS_coronavirus_civet007             tCCAGCTATGCATGCAGCTTCTGGCAATTTATTGCTAGATAAACGCACTACATGCTTTTC
SARS_coronavirus_GZ50                 tCCAGCTATGCATGCAGCTTCTGGCAATTTATTGCTAGATAAACGCACTACATGCTTTTC
SARS_coronavirus_Taiwan_TC1           tCCAGCTATGCATGCAGCTTCTGGCAATTTATTGCTAGATAAACGCACTACATGCTTTTC
Bat_coronavirus_(BtCoV/273/2005)      CCCAGCcATGCATGCAGCTTCTGGCAATTTATTGCTAGAcAAACGCACTACATGCTTTTC
BtRf-BetaCoV/HeB2013                  CCCAGCcATGCATGCAGCTTCTGGCAATTTATTGCTAGAcAAACGCACTACATGCTTTTC

SARS_CORONAVIRUS                      --TtGtTGCtCTA----------TTaCgTTTgtAACacaTCAtACaaGtTgA--TgAATt
Severe_acute_respiratory_syndrom      AGTAGCTGCACTtACtAACAATGTTGCTTTTCAAAC-TGTCAAACCCGGTAATTTTAAcA
SARS_coronavirus_civet007             AGTAGCTGCACTAACAAACAATGTTGCTTTTCAAAC-TGTCAAACCCGGTAATTTTAATA
SARS_coronavirus_GZ50                 AGTAGCTGCACTAACAAACAATGTTGCTTTTCAAAC-TGTCAAACCCGGTAATTTTAATA
SARS_coronavirus_Taiwan_TC1           AGTAGCTGCACTAACAAACAATGTTGCTTTTCAAAC-TGTCAAACCCGGTAATTTTAATA
Bat_coronavirus_(BtCoV/273/2005)      AGTgGCTGCACTAACAAACAATGTctCTTTTCAAAC-TGTCAAACCCGGTAATTTTAATA
BtRf-BetaCoV/HeB2013                  AGTgGCTGCACTAACAAACAATGTctCTTTTCAAAC-TGTCAAACCCGGTAATTTTAATA

SARS_CORONAVIRUS                      AcaACcgTctacaacatgcacATaACTTTtCcaTacaTAAtaaaaTgaTgcAaagAaGAt
Severe_acute_respiratory_syndrom      AAGACTTc------------TATGACTTTGCTGTGTCTAAgGGTTTCTTTAAGGAAGGAA
SARS_coronavirus_civet007             AAGACTTT------------TATGACTTTGCTGTGTCTAAAGGTTTCTTTAAGGAAGGAA
SARS_coronavirus_GZ50                 AAGACTTT------------TATGACTTTGCTGTGTCTAAAGGTTTCTTTAAGGAAGGAA
SARS_coronavirus_Taiwan_TC1           AAGACTTT------------TATGACTTTGCTGTGTCTAAAGGTTTCTTTAAGGAAGGAA
Bat_coronavirus_(BtCoV/273/2005)      AgGACTTT------------TATGACTTTGCTGTGTCTAAAGGcTTCTTTAAGGAAGGAA
BtRf-BetaCoV/HeB2013                  AgGACTTT------------TATGACTTTGCTGTGTCTAAAGGcTTCTTTAAGGAAGGAA

SARS_CORONAVIRUS                      GTaCatTctAACcAtAgC-------------------TGaaAtCGggGCcATttGTacaa
Severe_acute_respiratory_syndrom      GTTCTGTTGAAtTAAAACACTTCTTCTTTGCTCAGGATGGtAAtGCTGCTATCAGc----
SARS_coronavirus_civet007             GTTCTGTTGAACTAAAACACTTCTTCTTTGCTCAGGATGGCAACGCTGCTATCAGT----
SARS_coronavirus_GZ50                 GTTCTGTTGAACTAAAACACTTCTTCTTTGCTCAGGATGGCAACGCTGCTATCAGT----
SARS_coronavirus_Taiwan_TC1           GTTCTGTTGAACTAAAACACTTCTTCTTTGCTCAGGATGGCAACGCTGCTATCAGT----
Bat_coronavirus_(BtCoV/273/2005)      GTTCTGTTGAACTAAAACACTTCTTCTTTGCTCAGGATGGCAAtGCTGCTATCAGc----
BtRf-BetaCoV/HeB2013                  GTTCTGTTGAACTAAAACACTTCTTCTTTGCTCAGGATGGCAAtGCTGCTATtAGc----

SARS_CORONAVIRUS                      GATTA--AtTATTAaCcacATAAgCcaagaatTaCtAAtAAaaTGTacTgcaAaAtAgCT
Severe_acute_respiratory_syndrom      GATTATGACTAcTATCGTTATAATC-------TaCCAACAATGTGTGATATCAGACAACT
SARS_coronavirus_civet007             GATTATGACTATTATCGTTATAATC-------TGCCAACAATGTGTGATATCAGACAACT
SARS_coronavirus_GZ50                 GATTATGACTATTATCGTTATAATC-------TGCCAACAATGTGTGATATCAGACAACT
SARS_coronavirus_Taiwan_TC1           GATTATGACTATTATCGTTATAATC-------TGCCAACAATGTGTGATATCAGACAACT
Bat_coronavirus_(BtCoV/273/2005)      GATTATGACTATTATCGTTATAATC-------TGCCAACAATGTGTGATATCAGACAACT
BtRf-BetaCoV/HeB2013                  GATTATGACTATTATCGTTATAATC-------TGCCAACAATGTGTGATATCAGACAACT

SARS_CORONAVIRUS                      gaaaaaCaATTgCaTgaTTGcAGccaaT-ccAAGTACaTaGAaaaacctagTGaaaagaa
Severe_acute_respiratory_syndrom      -----aCTATT-tGTAGTTGAAGTTGTTGATAAGTACTTTGATTGTTACGATGGTGGCTG
SARS_coronavirus_civet007             -----CCTATT-CGTAGTTGAAGTTGTTGATAAaTACTTTGATTGTTACGATGGTGGCTG
SARS_coronavirus_GZ50                 -----CCTATT-CGTAGTTGAAGTTGTTGATAAaTACTTTGATTGTTACGATGGTGGCTG
SARS_coronavirus_Taiwan_TC1           -----CCTATT-CGTAGTTGAAGTTGTTGATAAaTACTTTGATTGTTACGATGGTGGCTG
Bat_coronavirus_(BtCoV/273/2005)      -----CCTATT-CGTAGTTGAAGTTGTTGATAAGTACTTTGATTGTTACGATGGTGGCTG
BtRf-BetaCoV/HeB2013                  -----CCTATT-CGTAGTTGAAGTTGTTGATAAGTACTTTGATTGTTACGATGGTGGCTG

SARS_CORONAVIRUS                      TAT--ATGCCAA-aAAccAcTCtgcAACtAAgCca---AAAgCAGtTaaa-TCCCATTTA
Severe_acute_respiratory_syndrom      TATTAATGCtAACCAAGTcATCGTcAAC-AAcCTaGAcAAATCAGCTGGTTTtCCATTTA
SARS_coronavirus_civet007             TATTAATGCCAACCAAGTAATCGTTAAC-AATCTGGATAAATCAGCTGGTTTCCCATTTA
SARS_coronavirus_GZ50                 TATTAATGCCAACCAAGTAATCGTTAAC-AATCTGGATAAATCAGCTGGTTTCCCATTTA
SARS_coronavirus_Taiwan_TC1           TATTAATGCCAACCAAGTAATCGTTAAC-AATCTGGATAAATCAGCTGGTTTCCCATTTA
Bat_coronavirus_(BtCoV/273/2005)      TATTAATGCtAACCAAGTAATCGTaAAC-AATCTGGATAAATCAGCTGGaTTtCCATTTA
BtRf-BetaCoV/HeB2013                  TATTAATGCtAACCAAGTAATCGTaAAC-AATCTGGATAAATCAGCTGGaTTtCCATTTA

SARS_CORONAVIRUS                      AaAgATGa---AAtGgTAattTgTATagTttCTaA-------AgaAGGAT--AGgTG---
Severe_acute_respiratory_syndrom      ATAAATGGGGTAAGGCTAGACTTTATTATGAtTCAATGAGTTATGAGGATCAAGATGCAC
SARS_coronavirus_civet007             ATAAATGGGGTAAGGCTAGACTTTATTATGACTCAATGAGTTATGAGGATCAAGATGCAC
SARS_coronavirus_GZ50                 ATAAATGGGGTAAGGCTAGACTTTATTATGACTCAATGAGTTATGAGGATCAAGATGCAC
SARS_coronavirus_Taiwan_TC1           ATAAATGGGGTAAGGCTAGACTTTATTATGACTCAATGAGTTATGAGGATCAAGATGCAC
Bat_coronavirus_(BtCoV/273/2005)      ATAAATGGGGTAAGGCTAGgCTTTATTATGAtTCAATGAGTTATGAGGAcCAAGATGCAC
BtRf-BetaCoV/HeB2013                  AcAAATGGGGTAAGGCTAGgCTTTATTATGAtTCAATGAGTTATGAGGATCAAGATGCAC

SARS_CORONAVIRUS                      ----------------------------------------TCtAAaGAATCTaAAccAct
Severe_acute_respiratory_syndrom      TTTTCGCaTATACaAAaCGTAATGTCATCCCTACTATAACTCAAATGAATCTTAAGTAT-
SARS_coronavirus_civet007             TTTTCGCGTATACTAAGCGTAATGTCATCCCTACTATAACTCAAATGAATCTTAAGTAT-
SARS_coronavirus_GZ50                 TTTTCGCGTATACTAAGCGTAATGTCATCCCTACTATAACTCAAATGAATCTTAAGTAT-
SARS_coronavirus_Taiwan_TC1           TTTTCGCGTATACTAAGCGTAATGTCATCCCTACTATAACTCAAATGAATCTTAAGTAT-
Bat_coronavirus_(BtCoV/273/2005)      TTTTCGCGTAcACTAAGCGTAAcGTCcTCCCTACTATAACTCAAATGAATCTTAAGTAT-
BtRf-BetaCoV/HeB2013                  TTTTCGCGTAcACTAAGCGTAATGTCcTCCCTACTATAACTCAAATGAATCTTAAGTAT-

SARS_CORONAVIRUS                      aagaCaAacAcTaCAAgGtATAGAaCcaGtACaGTAGgT------------TGcAaTAgT
Severe_acute_respiratory_syndrom      ---GCCATTAGTGCAAAGAATAGAGCTCGCACCGTAGCTGGTGTCTCTATCTGTAGTACT
SARS_coronavirus_civet007             ---GCCATTAGTGCAAAGAATAGAGCTCGCACCGTAGCTGGTGTCTCTATCTGTAGTACT
SARS_coronavirus_GZ50                 ---GCCATTAGTGCAAAGAATAGAGCTCGCACCGTAGCTGGTGTCTCTATCTGTAGTACT
SARS_coronavirus_Taiwan_TC1           ---GCCATTAGTGCAAAGAATAGAGCTCGCACCGTAGCTGGTGTCTCTATCTGTAGTACT
Bat_coronavirus_(BtCoV/273/2005)      ---GCCATTAGTGCAAAGAATAGAGCTCGCACtGTAGCaGGTGTCTCTATCTGTAGTACT
BtRf-BetaCoV/HeB2013                  ---GCCATTAGTGCAAAGAATAGAGCTCGCACCGTAGCaGGTGTCTCTATCTGTAGTACT

SARS_CORONAVIRUS                      gacAttAgTAGA---gTTCAggAtcAgTTgTgtggtaGtAcTCAAaAGCCtCaACacGta
Severe_acute_respiratory_syndrom      ATGACcAATAGACAGTTTCATCAaAAATTATT-----GAAaTCAATAGCCGCCACTAGAG
SARS_coronavirus_civet007             ATGACAAATAGACAGTTTCATCAGAAATTATT-----GAAGTCAATAGCCGCCACTAGAG
SARS_coronavirus_GZ50                 ATGACAAATAGACAGTTTCATCAGAAATTATT-----GAAGTCAATAGCCGCCACTAGAG
SARS_coronavirus_Taiwan_TC1           ATGACAAATAGACAGTTTCATCAGAAATTATT-----GAAGTCAATAGCCGCCACTAGAG
Bat_coronavirus_(BtCoV/273/2005)      ATGACcAATAGACAGTTTCATCAGAAATTAcT-----aAAGTCAATAGCCGCCACTAGAG
BtRf-BetaCoV/HeB2013                  ATGACcAATAGACAGTTTCATCAGAAATTAcT-----aAAGTCAATAGCCGCCACTAGAG

SARS_CORONAVIRUS                      GAGtgtCatcAtTAggTaaAACAtAaaAtGTTTTACctTcatgtGaATtATgaGgT----
Severe_acute_respiratory_syndrom      GAGCTACTGTAGTAATTGGAACA-AGCAAaTTcTAtGGTGGtTGGCAcAAcATGTTAAAA
SARS_coronavirus_civet007             GAGCTACTGTgGTAATTGGAACA-AGCAAGTTTTACGGTGGCTGGCATAATATGTTAAAA
SARS_coronavirus_GZ50                 GAGCTACTGTgGTAATTGGAACA-AGCAAGTTTTACGGTGGCTGGCATAATATGTTAAAA
SARS_coronavirus_Taiwan_TC1           GAGCTACTGTgGTAATTGGAACA-AGCAAGTTTTACGGTGGCTGGCATAATATGTTAAAA
Bat_coronavirus_(BtCoV/273/2005)      GAGCTACTGTAGTAATTGGAACA-AGCAAaTTTTACGGTGGCTGGCATAAcATGTTAAAA
BtRf-BetaCoV/HeB2013                  GAGCTACTGTAGTAATTGGAACA-AGCAAaTTTTACGGTGGCTGGCATAAcATGTTAAAA

SARS_CORONAVIRUS                      -tTtaTTttAGTaAcaT--cAgCTCCAt-CCaaATaaGTTGGa-----CCAAAcTGttgt
Severe_acute_respiratory_syndrom      ACTGTTTAtAGTGATGTAGAAAacCCtCACCTTATGGGTTGGGATTATCCtAAATG----
SARS_coronavirus_civet007             ACTGTTTACAGTGATGTAGAAACTCCACACCTTATGGGTTGGGATTATCCAAAATG----
SARS_coronavirus_GZ50                 ACTGTTTACAGTGATGTAGAAACTCCACACCTTATGGGTTGGGATTATCCAAAATG----
SARS_coronavirus_Taiwan_TC1           ACTGTTTACAGTGATGTAGAAACTCCACACCTTATGGGTTGGGATTATCCAAAATG----
Bat_coronavirus_(BtCoV/273/2005)      ACTGTcTACAGTGATGTAGAAAaTCCcCACCTTATGGGTTGGGAcTATCCAAAgTG----
BtRf-BetaCoV/HeB2013                  ACTGTcTACAGTGATGTAGAAACTCCctAtCTTATGGGTTGGGAcTAcCCAAAATG----

SARS_CORONAVIRUS                      ccatatgtcatTGACAtgtCCAcaaCTtgCgTGtggAGGtTAATGttgTCTacTGTT---
Severe_acute_respiratory_syndrom      -----------TGAtAGAGCCATGCCTAACATGCTTAGaATtATGGCCTCaCTTGTTCTT
SARS_coronavirus_civet007             -----------TGACAGAGCCATGCCTAACATGCTTAGGATAATGGCCTCTCTTGTTCTT
SARS_coronavirus_GZ50                 -----------TGACAGAGCCATGCCTAACATGCTTAGGATAATGGCCTCTCTTGTTCTT
SARS_coronavirus_Taiwan_TC1           -----------TGACAGAGCCATGCCTAACATGCTTAGGATAATGGCCTCTCTTGTTCTT
Bat_coronavirus_(BtCoV/273/2005)      -----------TGACAGAGCCATGCCTAACATGCTTAGaATtATGGCtTCTCTTGTTCTT
BtRf-BetaCoV/HeB2013                  -----------TGACAGAGCCATGCCTAACATGCTTAGaATtATGGCtTCTCTTGTTCTT

SARS_CORONAVIRUS                      ----GtAAACAccttAaTaGtccTcACTTcTCtCA---------------AagaAAgaAG
Severe_acute_respiratory_syndrom      GCTCGCAAACATAcaACgTGtTGTAgCTTgTCACACCGTTTCTAtAGATTAGCTAAtGAG
SARS_coronavirus_civet007             GCTCGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGgTTAGCTAACGAG
SARS_coronavirus_GZ50                 GCTCGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGgTTAGCTAACGAG
SARS_coronavirus_Taiwan_TC1           GCTCGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGgTTAGCTAACGAG
Bat_coronavirus_(BtCoV/273/2005)      GCTCGCAAACATAgCACTTGtTGTAACTTgTCACACCGTTTCTAtAGATTAGCTAAtGAG
BtRf-BetaCoV/HeB2013                  GCTCGCAAACATAgCACTTGCTGTAACTTgTCACACCGTTTCTAtAGATTAGCTAAtGAG

SARS_CORONAVIRUS                      TGTct------------TaAGATtGTCAaagGTGataaCtTCACcAT--------CtAGG
Severe_acute_respiratory_syndrom      TGTGCtCAAGTATTgAGTGAaATGGTCATGTGTGGCGGt-TCACTATATGTTAAACCAGG
SARS_coronavirus_civet007             TGTGCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGC-TCACTATATGTTAAACCAGG
SARS_coronavirus_GZ50                 TGTGCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGC-TCACTATATGTTAAACCAGG
SARS_coronavirus_Taiwan_TC1           TGTGCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGC-TCACTATATGTTAAACCAGG
Bat_coronavirus_(BtCoV/273/2005)      TGTGCaCAAGTATTAAGTGAGATGGTCATGTGcGGaGGC-TCACTATATGTaAAACCAGG
BtRf-BetaCoV/HeB2013                  TGTGCaCAAGTATTAAGTGAGATGGTCATGTGTGGaGGC-TCACTATATGTaAAACCAGG

SARS_CORONAVIRUS                      TGGAAtgTggTagGaTtA------------------------------------------
Severe_acute_respiratory_syndrom      TGGAACcTCATCAGGaGATGCCACAACTGCTTATGCTAATAGTGTtTTTAACATTTGTCA
SARS_coronavirus_civet007             TGGAACATCATCcGGTGATGCtACAACTGCTTATGCTAATAGTGTCTTTAACATTTGTCA
SARS_coronavirus_GZ50                 TGGAACATCATCcGGTGATGCtACAACTGCTTATGCTAATAGTGTCTTTAACATTTGTCA
SARS_coronavirus_Taiwan_TC1           TGGAACATCATCcGGTGATGCtACAACTGCTTATGCTAATAGTGTCTTTAACATTTGTCA
Bat_coronavirus_(BtCoV/273/2005)      TGGAACATCATCAGGTGATGCCACAACTGCcTAcGCTAATAGTGTgTTTAACATTTGTCA
BtRf-BetaCoV/HeB2013                  TGGAACATCATCAGGTGATGCCACAACTGCTTATGCTAATAGTGTgTTTAACATTTGTCA

SARS_CORONAVIRUS                      -----------CtAgTGTAAtATaCACTTtTaTCAcCT-cTctTAAgAAatTctaTacCt
Severe_acute_respiratory_syndrom      AGCTGTcACgGCCAATGTtA-ATGCACTTtTaTCtACTGATGGTAACAAaATtGCcGAtA
SARS_coronavirus_civet007             AGCTGTtACAGCCAATGTAA-ATGCACTTCTTTCAACTGATGGTAAtAAGATAGCTGACA
SARS_coronavirus_GZ50                 AGCTGTtACAGCCAATGTAA-ATGCACTTCTTTCAACTGATGGTAAtAAGATAGCTGACA
SARS_coronavirus_Taiwan_TC1           AGCTGTtACAGCCAATGTAA-ATGCACTTCTTTCAACTGATGGTAAtAAGATAGCTGACA
Bat_coronavirus_(BtCoV/273/2005)      AGCgGTgACAGCtAATGTAA-ATGCACTTCTcTCAACTGATGGTAACAAGATtGCTGACA
BtRf-BetaCoV/HeB2013                  AGCgGTgACAGCtAATGTAA-ATGCACTTCTTTCAACTGATGGTAACAAGATtGCTGACA

SARS_CORONAVIRUS                      AGT-TGTgtagAtTgTcCAgaAtAGGacCaA------TCTtTATAGgAAccaGcAaGT--
Severe_acute_respiratory_syndrom      AGTATGTCCGCAATtTACAACACAGaCTtTATGAGTGTCTCTATAGAAATAGaGATGTTG
SARS_coronavirus_civet007             AGTATGTCCGCAATCTACAACACAGGCTCTATGAGTGTCTCTATAGAAATAGGGATGTTG
SARS_coronavirus_GZ50                 AGTATGTCCGCAATCTACAACACAGGCTCTATGAGTGTCTCTATAGAAATAGGGATGTTG
SARS_coronavirus_Taiwan_TC1           AGTATGTCCGCAATCTACAACACAGGCTCTATGAGTGTCTCTATAGAAATAGGGATGTTG
Bat_coronavirus_(BtCoV/273/2005)      AGTAcGTtCGCAAcCTtCAACACAGaCTaTATGAGTGTCTCTATAGAAATAGaGAcGTTG
BtRf-BetaCoV/HeB2013                  AGTAcGTtCGCAAcCTcCAACACAGGCTaTATGAGTGTCTCTATAGAAATAGaGAcGTTG

SARS_CORONAVIRUS                      ------------gaGATG-GTTTcA-----------aTAAAatgTTCTtCAgG-----Tg
Severe_acute_respiratory_syndrom      AcacaGAcTTtGTGaATGAGTTTTACGCATAttTGCGTAAACATTTCTCaATGATGATaC
SARS_coronavirus_civet007             ATCATGAATTCGTGGATGAGTTTTACGCtTACCTGCGTAAACATTTCTCCATGATGATTC
SARS_coronavirus_GZ50                 ATCATGAATTCGTGGATGAGTTTTACGCtTACCTGCGTAAACATTTCTCCATGATGATTC
SARS_coronavirus_Taiwan_TC1           ATCATGAATTCGTGGATGAGTTTTACGCtTACCTGCGTAAACATTTCTCCATGATGATTC
Bat_coronavirus_(BtCoV/273/2005)      ATCATGAATTtGTGGAcGAaTTTTACGCATAttTGCGTAAgCAcTTCTCCATGATGATTC
BtRf-BetaCoV/HeB2013                  ATCATGAATTtGTGGATGAaTTTTACGCATAttTGCGTAAgCATTTCTCCATGATGATTC

SARS_CORONAVIRUS                      TTTtaGAaGAaGaagtaagataaCCaTTaTacGCTgTAACAGcAt-----CaGgTgAAGa
Severe_acute_respiratory_syndrom      TcTCTGAcGATG-----------CtGTTGTGTGtTtcAAtAGcActTATGCatCTCAAGG
SARS_coronavirus_civet007             TTTCTGATGATG-----------CCGTTGTGTGCTATAACAGTAACTATGCGGCTCAAGG
SARS_coronavirus_GZ50                 TTTCTGATGATG-----------CCGTTGTGTGCTATAACAGTAACTATGCGGCTCAAGG
SARS_coronavirus_Taiwan_TC1           TTTCTGATGATG-----------CCGTTGTGTGCTATAACAGTAACTATGCGGCTCAAGG
Bat_coronavirus_(BtCoV/273/2005)      TTTCTGATGATG-----------CCGTTGTGTGCTAcAAtAGTAACTATGCGGCgCAAGG
BtRf-BetaCoV/HeB2013                  TTTCTGATGATG-----------CCGTTGTGTGCTAcAAtAGTAACTATGCGGCTCAAGG

SARS_CORONAVIRUS                      aacAGaAaCT-GtAgCtgGcACTTTgAG--AGaTCTcataTAcC-gAgcAgctTcTTCca
Severe_acute_respiratory_syndrom      TcTAGTgGCTAGCATaAAGAACTTTAAGtCAGTTCTTTATTATCAAAAcAATGTtTTtAT
SARS_coronavirus_civet007             TTTAGTAGCTAGCATtAAGAACTTTAAGGCAGTTCTTTATTATCAAAATAATGTGTTCAT
SARS_coronavirus_GZ50                 TTTAGTAGCTAGCATtAAGAACTTTAAGGCAGTTCTTTATTATCAAAATAATGTGTTCAT
SARS_coronavirus_Taiwan_TC1           TTTAGTAGCTAGCATtAAGAACTTTAAGGCAGTTCTTTATTATCAAAATAATGTGTTCAT
Bat_coronavirus_(BtCoV/273/2005)      TTTAGTAGCTAGCATCAAGAACTTTAAaGCAGTTCTTTAcTATCAAAAcAATGTGTTtAT
BtRf-BetaCoV/HeB2013                  TTTAGTAGCTAGCATCAAGAACTTTAAaGCAGTTCTTTAcTAcCAAAATAATGTGTTtAT

SARS_CORONAVIRUS                      aatTtAaGCcAtgTGTT------------ACaTagCcAAgtGgCaTtgT-----------
Severe_acute_respiratory_syndrom      GTCTGAaGCAAAATGTTGGACTGAGACTGACCTTACTAAAGGACCTCATGAATTTTGCTC
SARS_coronavirus_civet007             GTCTGAGGCAAAATGTTGGACTGAGACTGACCTTACTAAAGGACCTCAcGAATTTTGCTC
SARS_coronavirus_GZ50                 GTCTGAGGCAAAATGTTGGACTGAGACTGACCTTACTAAAGGACCTCAcGAATTTTGCTC
SARS_coronavirus_Taiwan_TC1           GTCTGAGGCAAAATGTTGGACTGAGACTGACCTTACTAAAGGACCTCAcGAATTTTGCTC
Bat_coronavirus_(BtCoV/273/2005)      GTCTGAGGCAAAATGcTGGACTGAGACTGAtCTTACcAAAGGACCTCATGAATTTTGCTC
BtRf-BetaCoV/HeB2013                  GTCTGAGGCAAAATGcTGGACTGAGACTGACCTTACcAAAGGACCTCATGAATTTTGCTC

SARS_CORONAVIRUS                      --------------------AACAAG----------------------------AGtTtC
Severe_acute_respiratory_syndrom      tCAaCATACAATGCTAGTTAAACAgGGtGATGATTAtGTGTACCTtCCTTACCCAGATCC
SARS_coronavirus_civet007             ACAGCATACAATGCTAGTTAAACAAGGAGATGATTACGTGTACCTGCCTTACCCAGATCC
SARS_coronavirus_GZ50                 ACAGCATACAATGCTAGTTAAACAAGGAGATGATTACGTGTACCTGCCTTACCCAGATCC
SARS_coronavirus_Taiwan_TC1           ACAGCATACAATGCTAGTTAAACAAGGAGATGATTACGTGTACCTGCCTTACCCAGATCC
Bat_coronavirus_(BtCoV/273/2005)      tCAGCATACAATGCTAGTTAAACAAGGAGATGAcTAtGTGTACCTGCCTTAtCCAGATCC
BtRf-BetaCoV/HeB2013                  tCAGCATACAATGCTAGTTAAACAAGGAGATGAcTAtGTGTACCTGCCTTAtCCAGATCC

SARS_CORONAVIRUS                      ATttAGAtcgTTAaGtG----------TGTtGATa--AgTGaCgctACAGtTGtTttACT
Severe_acute_respiratory_syndrom      ATCAAGAATccTAGGgGCcGGCTGTTTTGTaGATGATATcGTaAAAACAGATGGTACACT
SARS_coronavirus_civet007             ATCAAGAATATTAGGCGCAGGCTGTTTTGTCGATGATATTGTCAAAACAGATGGTACACT
SARS_coronavirus_GZ50                 ATCAAGAATATTAGGCGCAGGCTGTTTTGTCGATGATATTGTCAAAACAGATGGTACACT
SARS_coronavirus_Taiwan_TC1           ATCAAGAATATTAGGCGCAGGCTGTTTTGTCGATGATATTGTCAAAACAGATGGTACACT
Bat_coronavirus_(BtCoV/273/2005)      ATCAAGAATATTAGGCGCAGGCTGTTTTGTtGATGAcATcGTCAAAACAGATGGTACACT
BtRf-BetaCoV/HeB2013                  ATCAAGAATAcTAGGCGCAGGCTGTTTTGTtGATGAcATcGTCAAAACAGATGGTACACT

SARS_CORONAVIRUS                      ggTG--TaAAAG---------------------------------TAaAAtctAgCAcCa
Severe_acute_respiratory_syndrom      TATGATTGAAcGGTTCGTGTCttTaGCTATaGATGCTTACCCACTTACtA---AACATCC
SARS_coronavirus_civet007             TATGATTGAAAGGTTCGTGTCACTGGCTATTGATGCTTACCCACTTACAA---AACATCC
SARS_coronavirus_GZ50                 TATGATTGAAAGGTTCGTGTCACTGGCTATTGATGCTTACCCACTTACAA---AACATCC
SARS_coronavirus_Taiwan_TC1           TATGATTGAAAGGTTCGTGTCACTGGCTATTGATGCTTACCCACTTACAA---AACATCC
Bat_coronavirus_(BtCoV/273/2005)      TATGATTGAAAGGTTtGTGTCACTtGCgATTGAcGCTTACCCACTTACtA---AACAcCC
BtRf-BetaCoV/HeB2013                  TATGATTGAAAGGTTtGTGTCACTtGCgATTGATGCTTACCCACTTACtA---AACAcCC

SARS_CORONAVIRUS                      TAATCAaccacAccCTctTGTaTTTtAataccCTTaTATTTACgcTgtAT----AgtTgA
Severe_acute_respiratory_syndrom      TAATCAGGAGTATGCTGATGTCTTTCA-----tTTGTAcTTACAATACATaAGAAAGcTA
SARS_coronavirus_civet007             TAATCAGGAGTATGCTGATGTCTTTCA-----CTTGTATTTACAATACATTAGAAAGTTA
SARS_coronavirus_GZ50                 TAATCAGGAGTATGCTGATGTCTTTCA-----CTTGTATTTACAATACATTAGAAAGTTA
SARS_coronavirus_Taiwan_TC1           TAATCAGGAGTATGCTGATGTCTTTCA-----CTTGTATTTACAATACATTAGAAAGTTA
Bat_coronavirus_(BtCoV/273/2005)      aAAcCAGGAaTATGCTGATGTtTTcCA-----CTTGTATTTgCAATACATTAGgAAaTTA
BtRf-BetaCoV/HeB2013                  cAAcCAGGAGTATGCTGATGTtTTcCA-----tTTGTATTTgCAATACATTAGgAAaTTA

SARS_CORONAVIRUS                      aActATGgctTTAgTttCCACA---caGACAgGcATTaatttgCGTgtTtCTtctgCatg
Severe_acute_respiratory_syndrom      CATGATGAGtTaACaGGaCACATGTTaGACATGTATTC-----tGTtATGCT--tACTAA
SARS_coronavirus_civet007             CATGATGAGCTTACTGGCCACATGTTGGACATGTATTC-----CGTAATGCT--AACTAA
SARS_coronavirus_GZ50                 CATGATGAGCTTACTGGCCACATGTTGGACATGTATTC-----CGTAATGCT--AACTAA
SARS_coronavirus_Taiwan_TC1           CATGATGAGCTTACTGGCCACATGTTGGACATGTATTC-----CGTAATGCT--AACTAA
Bat_coronavirus_(BtCoV/273/2005)      CATGATGAGCTTACTGGtCACATGTTGGACATGTAcTC-----tGTAATGCT--AACTAA
BtRf-BetaCoV/HeB2013                  CATGATGAGCTTACTGGtCACATGTTGGACATGTAcTC-----tGTAATGCT--AACTAA

SARS_CORONAVIRUS                      TGcaAgCAttTCtCGcaaaTtCcaaGAAaC--AGTTccAaGAattTcTtgcTtCtCAttA
Severe_acute_respiratory_syndrom      TGATAACACtTCAaG---GTAtTGGGAACCTGAGTTTTATGAGGCTATG--TACACACCg
SARS_coronavirus_civet007             TGATAACACCTCACG---GTACTGGGAACCTGAGTTTTATGAGGCTATG--TACACACCA
SARS_coronavirus_GZ50                 TGATAACACCTCACG---GTACTGGGAACCTGAGTTTTATGAGGCTATG--TACACACCA
SARS_coronavirus_Taiwan_TC1           TGATAACACCTCACG---GTACTGGGAACCTGAGTTTTATGAGGCTATG--TACACACCA
Bat_coronavirus_(BtCoV/273/2005)      TGAcAAtACaTCACG---GTACTGGGAACCTGAGTTTTAcGAaGCcATG--TACACACCA
BtRf-BetaCoV/HeB2013                  TGATAACACaTCACG---GTACTGGGAACCTGAGTTTTAcGAGGCcATG--TACACACCA

SARS_CORONAVIRUS                      gAgAtAaTagaTgGtAGaaTGTaaaAGGcaCTTtTacAcTtTttAA-gCACtGtCTTtgC
Severe_acute_respiratory_syndrom      CATACAGT--CTTaCAGGCTGT---tGGgGCTTGTGTtcTtTGCAATTCACAGACTTCAt
SARS_coronavirus_civet007             CATACAGT--CTTGCAGGCTGT---AGGTGCTTGTGTATTGTGCAATTCACAGACTTCAC
SARS_coronavirus_GZ50                 CATACAGT--CTTGCAGGCTGT---AGGTGCTTGTGTATTGTGCAATTCACAGACTTCAC
SARS_coronavirus_Taiwan_TC1           CATACAGT--CTTGCAGGCTGT---AGGTGCTTGTGTATTGTGCAATTCACAGACTTCAC
Bat_coronavirus_(BtCoV/273/2005)      CATACAaT--CTTGCAGGCTGT---AGGTGCaTGTGTgTTGTGtAATTCACAGACTTCAC
BtRf-BetaCoV/HeB2013                  CATACAaT--CTTGCAGGCTGT---AGGTGCaTGTGTATTGTGtAAcTCACAGACTTCAC

SARS_CORONAVIRUS                      cTCcTcTaCaGTGtaacCATTtaaAccCtgacCCgg----GtAAGTGgTtaTATaA----
Severe_acute_respiratory_syndrom      TaaGa-TGtGGTGCtTGCATacGtAGACCATTCtTATGTTGtAAaTGCTGtTAcGACCAT
SARS_coronavirus_civet007             TTCGT-TGCGGTGCCTGtATTAGGAGACCATTCCTATGTTGCAAGTGCTGCTATGACCAT
SARS_coronavirus_GZ50                 TTCGT-TGCGGTGCCTGtATTAGGAGACCATTCCTATGTTGCAAGTGCTGCTATGACCAT
SARS_coronavirus_Taiwan_TC1           TTCGT-TGCGGTGCCTGtATTAGGAGACCATTCCTATGTTGCAAGTGCTGCTATGACCAT
Bat_coronavirus_(BtCoV/273/2005)      TTCGT-TGCGGcGCgTGCATTAGGAGACCgTTCCTtTGTTGCAAGTGCTGCTATGACCAT
BtRf-BetaCoV/HeB2013                  TTCGT-TGCGGcGCgTGCATTAGGAGACCgTTCCTtTGTTGCAAGTGCTGCTATGACCAT

SARS_CORONAVIRUS                      ---------------------------TTGTCTGTTggcaCtT---TTctCAAaGCtttc
Severe_acute_respiratory_syndrom      GTCATaTCAACATCACAtAAATTAGTcTTGTCTGTTAATCCgTATGTTTGCAATGCtCCA
SARS_coronavirus_civet007             GTCATTTCAACATCACACAAATTAGTGTTGTCTGTTAATCCCTATGTTTGCAATGCCCCA
SARS_coronavirus_GZ50                 GTCATTTCAACATCACACAAATTAGTGTTGTCTGTTAATCCCTATGTTTGCAATGCCCCA
SARS_coronavirus_Taiwan_TC1           GTCATTTCAACATCACACAAATTAGTGTTGTCTGTTAATCCCTATGTTTGCAATGCCCCA
Bat_coronavirus_(BtCoV/273/2005)      GTtATTTCAACATCtCAtAAATTAGTacTGTCTGTTAATCCCTATGTTTGCAATGCCCCA
BtRf-BetaCoV/HeB2013                  GTCATaTCAACATCcCACAAATTAGTGcTGTCTGTTAATCCCTATGTTTGCAATGCCCCA

SARS_CORONAVIRUS                      GcTaGc-ATtTCAgTa--GTGcCACcAgccTtTTTAGtAGGTATaAcC---------Aca
Severe_acute_respiratory_syndrom      GGTTGTGATGTCACaGATGTGACtCAACTtTAcTTAGGAGGTATGAGCTATTATTGtAAa
SARS_coronavirus_civet007             GGTTGTGATGTCACTGATGTGACACAACTGTATcTAGGAGGTATGAGCTATTATTGCAAG
SARS_coronavirus_GZ50                 GGTTGTGATGTCACTGATGTGACACAACTGTATcTAGGAGGTATGAGCTATTATTGCAAG
SARS_coronavirus_Taiwan_TC1           GGTTGTGATGTCACTGATGTGACACAACTGTATcTAGGAGGTATGAGCTATTATTGCAAG
Bat_coronavirus_(BtCoV/273/2005)      GGTTGTGgcGTtACTGATGTaACACAACTGTAcTTAGGAGGTATGAGtTAcTAcTGCAAG
BtRf-BetaCoV/HeB2013                  GGTTGTGAcGTtACTGATGTaACACAACTGTAcTTAGGAGGTATGAGCTAcTATTGCAAG

SARS_CORONAVIRUS                      gCAgtTAAaaCaCCCtcTtGaacaacaTcacCCAcTATaTatggAgcaTC----------
Severe_acute_respiratory_syndrom      TCACATAAaCCaCCCATTAG-------TTTTCCATTgTGTGCTAATGGaCAaGTTTTTGG
SARS_coronavirus_civet007             TCACATAAGCCTCCCATTAG-------TTTTCCATTATGTGCTAATGGTCAGGTTTTTGG
SARS_coronavirus_GZ50                 TCACATAAGCCTCCCATTAG-------TTTTCCATTATGTGCTAATGGTCAGGTTTTTGG
SARS_coronavirus_Taiwan_TC1           TCACATAAGCCTCCCATTAG-------TTTTCCATTATGTGCTAATGGTCAGGTTTTTGG
Bat_coronavirus_(BtCoV/273/2005)      TCACATAAGCCTCCCATTAG-------TTTcCCATTgTGTGCTAATGGTCAGGTTTTTGG
BtRf-BetaCoV/HeB2013                  TCACAcAAaCCTCCCATTAG-------TTTcCCATTgTGTGCTAATGGTCAGGTTTTTGG

SARS_CORONAVIRUS                      TTTcTtTAAgAA----------aGtgaTGtCAATGTCACTaACaagAgTG-----GCAga
Severe_acute_respiratory_syndrom      TTTATATAAAAAtACATGTGTtGGtAGcGAtAATGTtACTGACTTtAATGCaATtGCAAC
SARS_coronavirus_civet007             TTTATAcAAAAACACATGTGTAGGCAGTGACAATGTCACTGACTTCAATGCGATAGCAAC
SARS_coronavirus_GZ50                 TTTATAcAAAAACACATGTGTAGGCAGTGACAATGTCACTGACTTCAATGCGATAGCAAC
SARS_coronavirus_Taiwan_TC1           TTTATAcAAAAACACATGTGTAGGCAGTGACAATGTCACTGACTTCAATGCGATAGCAAC
Bat_coronavirus_(BtCoV/273/2005)      TcTATATAAgAACACATGTGTAGGCAGTGACAATGTtACTGACTTtAATGCtATAGCAAC
BtRf-BetaCoV/HeB2013                  TcTATATAAgAACACATGTGTAGGCAGTGACAATGTtACTGACTTtAATGCtATAGCAAC

SARS_CORONAVIRUS                      ATcTGgaTGaA-----GaTtGCcATTAatgtcaATAtaaagtAACAagTtTtCTGtGAGg
Severe_acute_respiratory_syndrom      ATGTGAcTGGACaAATGCTGGtGATTA-----CATttTaGCtAACACcTGTACTGAaAG-
SARS_coronavirus_civet007             ATGTGATTGGACTAATGCTGGCGATTA-----CATACTTGCCAACACTTGTACTGAGAG-
SARS_coronavirus_GZ50                 ATGTGATTGGACTAATGCTGGCGATTA-----CATACTTGCCAACACTTGTACTGAGAG-
SARS_coronavirus_Taiwan_TC1           ATGTGATTGGACTAATGCTGGCGATTA-----CATACTTGCCAACACTTGTACTGAGAG-
Bat_coronavirus_(BtCoV/273/2005)      ATGTGATTGGACTAATGCTGGCGATTA-----CATACTTGCCAACACTTGTACaGAGAG-
BtRf-BetaCoV/HeB2013                  ATGTGATTGGACTAATGCTGGCGATTA-----CATACTTGCCAACACTTGTACaGAGAG-

SARS_CORONAVIRUS                      aACTtAgttTcTTC----CAGAgttGtTgtAActtctTcAacAcAagcTTtgatTtTCTT
Severe_acute_respiratory_syndrom      -ACTCAAGCTTTTtGCAGCAGAAACGCTCAAAGCtACTGAGGAgACATTTAAaCTGTCTT
SARS_coronavirus_civet007             -ACTCAAGCTTTTCGCAGCAGAAACGCTCAAAGCCACTGAGGAAACATTTAAGCTGTCaT
SARS_coronavirus_GZ50                 -ACTCAAGCTTTTCGCAGCAGAAACGCTCAAAGCCACTGAGGAAACATTTAAGCTGTCaT
SARS_coronavirus_Taiwan_TC1           -ACTCAAGCTTTTCGCAGCAGAAACGCTCAAAGCCACTGAGGAAACATTTAAGCTGTCaT
Bat_coronavirus_(BtCoV/273/2005)      -ACTCAAGCTTTTCGCAGCtGAAACGCTCAAAGCaACTGAGGAgACATTcAAGCTaTCTT
BtRf-BetaCoV/HeB2013                  -ACTCAAGCTTTTCGCAGCtGAAACGCTCAAAGCaACTGAGGAgACATTcAAGCTaTCTT

SARS_CORONAVIRUS                      ATcaTcTTGttttCtCTGTtCaacTGAAGgttTACTtTCaGttAtAaatggcttAAcTtC
Severe_acute_respiratory_syndrom      ATGGTATTG---CtACTGTACG--TGAAG---TgCTgTCTGACAGAG-------AATTaC
SARS_coronavirus_civet007             ATGGTATTG---CCACTGTACG--cGAAG---TACTCTCTGACAGAG-------AATTGC
SARS_coronavirus_GZ50                 ATGGTATTG---CCACTGTACG--cGAAG---TACTCTCTGACAGAG-------AATTGC
SARS_coronavirus_Taiwan_TC1           ATGGTATTG---CCACTGTACG--cGAAG---TACTCTCTGACAGAG-------AATTGC
Bat_coronavirus_(BtCoV/273/2005)      ATGGTATTG---CtACTGTACG--TGAAG---TACTgTCTGAtAGAG-------AAcTtC
BtRf-BetaCoV/HeB2013                  ATGGTATTG---CCACTGTACG--TGAAG---TACTgTCTGAtAaAG-------AAcTtC

SARS_CORONAVIRUS                      cTCTTT------------aggAAtCTcagCgAtCtTTtgttc--AACTtgcTtTTcACTc
Severe_acute_respiratory_syndrom      ATCTTTCATGGGAaGTTGGtAAACCTAGACCACCAcTtAACcGAAAtTATGTCTTTACTG
SARS_coronavirus_civet007             ATCTTTCATGGGAGGTTGGAAAACCTAGACCACCATTGAACAGAAACTATGTCTTTACTG
SARS_coronavirus_GZ50                 ATCTTTCATGGGAGGTTGGAAAACCTAGACCACCATTGAACAGAAACTATGTCTTTACTG
SARS_coronavirus_Taiwan_TC1           ATCTTTCATGGGAGGTTGGAAAACCTAGACCACCATTGAACAGAAACTATGTCTTTACTG
Bat_coronavirus_(BtCoV/273/2005)      ATCTTTCATGGGAGGTaGGAAAACCaAGACCACCATTGAAtAGgAAtTATGTCTTTACTG
BtRf-BetaCoV/HeB2013                  AcCTTTCATGGGAGGTgGGAAAACCaAGACCACCATTGAAtAGgAAtTATGTCTTTACTG

SARS_CORONAVIRUS                      tTcA-----TttCcAAAAAgctTgAAacA-AGtTTGtcatagAgAttTTTatcAAAGaca
Severe_acute_respiratory_syndrom      GTTAtCGTGTAACTAAAAAcAGTAAAGTACAaATaGGAGAGTACACCTTTGAAAAAGGTG
SARS_coronavirus_civet007             GTTACCGTGTAACTAAAAATAGTAAAGTACAGATTGGAGAGTACACCTTTGAAAAAGGTG
SARS_coronavirus_GZ50                 GTTACCGTGTAACTAAAAATAGTAAAGTACAGATTGGAGAGTACACCTTTGAAAAAGGTG
SARS_coronavirus_Taiwan_TC1           GTTACCGTGTAACTAAAAATAGTAAAGTACAGATTGGAGAGTACACCTTTGAAAAAGGTG
Bat_coronavirus_(BtCoV/273/2005)      GTTACCGTGTAACTAAAAATAGTAAAGTACAaATTGGAGAGTACACaTTTGAAAAAGGTG
BtRf-BetaCoV/HeB2013                  GTTACCGTGTAACTAAAAATAGTAAAGTACAaATTGGAGAGTACACaTTTGAAAAAGGTG

SARS_CORONAVIRUS                      gCTAaGtaGAcatTtgTGcGaACAGtAtcTACacaAACtcttAAA--GAATGT-----AT
Severe_acute_respiratory_syndrom      ACTATGGTGATGCTGTTGTtTACcG-AGGTACaACAACtTACAAATTaAATGTTGGTGAT
SARS_coronavirus_civet007             ACTATGGTGATGCTGTTGTGTACAG-AGGTACTACgACATACAAgTTGAATGTTGGTGAT
SARS_coronavirus_GZ50                 ACTATGGTGATGCTGTTGTGTACAG-AGGTACTACgACATACAAgTTGAATGTTGGTGAT
SARS_coronavirus_Taiwan_TC1           ACTATGGTGATGCTGTTGTGTACAG-AGGTACTACgACATACAAgTTGAATGTTGGTGAT
Bat_coronavirus_(BtCoV/273/2005)      ACTATGGTGATGCTGTTGTGTACAG-AGGTACTACAACATACAAATTGAATGTTGGTGAT
BtRf-BetaCoV/HeB2013                  ACTATGGTGATGCTGTTGTGTACAG-AGGTACTACAACATAtAAATTGAATGTTGGTGAT

SARS_CORONAVIRUS                      agggTTGcGCcGACA---------------CtgCTctGTGggttTctctTctTG------
Severe_acute_respiratory_syndrom      TAtTTTGTGCTGACATCACAtACAGTAATGCCAtTAAGTGCACCTACACTAGTGCCACAA
SARS_coronavirus_civet007             TACTTTGTGtTGACATCtCACACtGTAATGCCACTtAGTGCACCTACtCTAGTGCCACAA
SARS_coronavirus_GZ50                 TACTTTGTGtTGACATCtCACACtGTAATGCCACTtAGTGCACCTACtCTAGTGCCACAA
SARS_coronavirus_Taiwan_TC1           TACTTTGTGtTGACATCtCACACtGTAATGCCACTtAGTGCACCTACtCTAGTGCCACAA
Bat_coronavirus_(BtCoV/273/2005)      TACTTTGTGCTaACATCACACACAGTAATGCCACTAAGTGCACCaACACTAGTGCCtCAA
BtRf-BetaCoV/HeB2013                  TACTTTGTGCTaACATCACACACAGTAATGCCACTAAGTGCACCTACACTAGTGCCtCAg

SARS_CORONAVIRUS                      ---------GcGtGggTTgCTG---------------ctgAggTtcCAGAgGAG------
Severe_acute_respiratory_syndrom      GAGCACTATGTtAGAATTACTGGCTTATACCCAACACTCAAtATCTCAGATGAGTTTTCT
SARS_coronavirus_civet007             GAGCACTATGTGAGAATTACTGGCTTgTACCCAACACTCAACATCTCAGATGAGTTTTCT
SARS_coronavirus_GZ50                 GAGCACTATGTGAGAATTACTGGCTTgTACCCAACACTCAACATCTCAGATGAGTTTTCT
SARS_coronavirus_Taiwan_TC1           GAGCACTATGTGAGAATTACTGGCTTgTACCCAACACTCAACATCTCAGATGAGTTTTCT
Bat_coronavirus_(BtCoV/273/2005)      GAGCACTATGTGAGAATaACTGGCTTATACCCAACtCTCAACATtTCAGAaGAGTTTTCT
BtRf-BetaCoV/HeB2013                  GAGCACTATGTGAGAATaACTGGCTTATACCCAACtCTCAACATtTCAGAaGAGTTTTCT

SARS_CORONAVIRUS                      ----------------AgCAgcAGGatGGC---CgggAGc--------------GGA--g
Severe_acute_respiratory_syndrom      AGCAATGTTGCAAATTATCAAAAGGTtGGtATGCAAAAGTAtTCTACACTCCAgGGACCA
SARS_coronavirus_civet007             AGCAATGTTGCAAATTATCAAAAGGTCGGCATGCAAAAGTACTCTACACTCCAAGGACCA
SARS_coronavirus_GZ50                 AGCAATGTTGCAAATTATCAAAAGGTCGGCATGCAAAAGTACTCTACACTCCAAGGACCA
SARS_coronavirus_Taiwan_TC1           AGCAATGTTGCAAATTATCAAAAGGTCGGCATGCAAAAGTACTCTACACTCCAAGGACCA
Bat_coronavirus_(BtCoV/273/2005)      AGCAATGTTGCAAAcTAcCAgAAGGTCGGtATGCAAAAaTAtTCaACACTCCAgGGACCA
BtRf-BetaCoV/HeB2013                  AGCAATGTTGCAAAcTAcCAgAAGGTCGGtATGCAAAAaTAtTCaACACTCCAgGGACCA

SARS_CORONAVIRUS                      CCaGGagtgaGgAAG---------GCCgcCGG----------------------------
Severe_acute_respiratory_syndrom      CCTGGTACTGGTAAGAGTCATTTTGCtATtGGcCTaGCTCTCTACTACCCtTCTGCTCGC
SARS_coronavirus_civet007             CCTGGTACTGGTAAGAGTCATTTTGCCATCGGACTTGCTCTCTAtTACCCATCTGCTCGC
SARS_coronavirus_GZ50                 CCTGGTACTGGTAAGAGTCATTTTGCCATCGGACTTGCTCTCTAtTACCCATCTGCTCGC
SARS_coronavirus_Taiwan_TC1           CCTGGTACTGGTAAGAGTCATTTTGCCATCGGACTTGCTCTCTAtTACCCATCTGCTCGC
Bat_coronavirus_(BtCoV/273/2005)      CCaGGTACcGGTAAGAGTCATTTTGCtATtGGACTTGCaCTCTACTACCCgTCTGCTCGC
BtRf-BetaCoV/HeB2013                  CCaGGTACcGGTAAGAGTCATTTTGCtATtGGACTTGCaCTCTACTACCCgTCTGCTCGC

SARS_CORONAVIRUS                      ----------CAGCATGCctTCgTcCcGgaacCTtTTGATG-------------------
Severe_acute_respiratory_syndrom      ATAGTGTATACAGCtTGCTCTCATGCcG----CTGTTGATGCACTATGTGAgAAGGCATT
SARS_coronavirus_civet007             ATAGTGTATACgGCATGCTCTCATGCAG----CTGTTGATGCcCTATGTGAAAAGGCATT
SARS_coronavirus_GZ50                 ATAGTGTATACgGCATGCTCTCATGCAG----CTGTTGATGCcCTATGTGAAAAGGCATT
SARS_coronavirus_Taiwan_TC1           ATAGTGTATACgGCATGCTCTCATGCAG----CTGTTGATGCcCTATGTGAAAAGGCATT
Bat_coronavirus_(BtCoV/273/2005)      ATAGTGTATACAGCtTGCTCTCATGCtG----CTGTTGATGCACTATGcGAAAAGGCATT
BtRf-BetaCoV/HeB2013                  ATAGTGTATACAGCtTGCTCTCATGCtG----CTGTTGATGCACTATGcGAAAAGGCATT

SARS_CORONAVIRUS                      ---------------gGgccAATGTcGT---ccCAaACCTctGgcTGCaCa--------G
Severe_acute_respiratory_syndrom      AAAATATTTGCCtATAGATAAATGTAGTAGAATtATACCTGCaCGTGCtCGtGTAGAGTG
SARS_coronavirus_civet007             AAAATATTTGCCCATAGATAAATGTAGTAGAATCATACCTGCGCGTGCGCGCGTAGAGTG
SARS_coronavirus_GZ50                 AAAATATTTGCCCATAGATAAATGTAGTAGAATCATACCTGCGCGTGCGCGCGTAGAGTG
SARS_coronavirus_Taiwan_TC1           AAAATATTTGCCCATAGATAAATGTAGTAGAATCATACCTGCGCGTGCGCGCGTAGAGTG
Bat_coronavirus_(BtCoV/273/2005)      gAAATAcTTGCCtATAGAcAAgTGcAGTAGAATCATACCTGCaCGTGCGCGtGTgGAGTG
BtRf-BetaCoV/HeB2013                  gAAATAcTTGCCtATAGAcAAgTGTAGTAGAATCATACCTGCaCGTGCGCGtGTgGAGTG

SARS_CORONAVIRUS                      cTTTGAagtcaTCAA--TGAccTCAAC---------------------CAtTGggAccat
Severe_acute_respiratory_syndrom      TTTTGATAAATTCAAAGTGAATTCAACAtTAGAACAGTATGTcTTtTGtACTGTAAATGC
SARS_coronavirus_civet007             TTTTGATAAATTCAAAGTGAATTCAACACTAGAACAGTATGTTTTCTGCACTGTAAATGC
SARS_coronavirus_GZ50                 TTTTGATAAATTCAAAGTGAATTCAACACTAGAACAGTATGTTTTCTGCACTGTAAATGC
SARS_coronavirus_Taiwan_TC1           TTTTGATAAATTCAAAGTGAATTCAACACTAGAACAGTATGTTTTCTGCACTGTAAATGC
Bat_coronavirus_(BtCoV/273/2005)      cTTTGAcAAATTCAAAGTGAATTCAACAtTAGAACAGTAcGTTTTCTGCACTGTAAATGC
BtRf-BetaCoV/HeB2013                  cTTTGAcAAATTCAAAGTGAATTCAACAtTAGAACAGTATGTTTTCTGCACTGTAAATGC

SARS_CORONAVIRUS                      ATcaCCAa--------GCTaA------gGTtccTGAaagAgTCcCTcaGaggA-----gA
Severe_acute_respiratory_syndrom      ATTGCCtGAgACgACaGCaGAtATAGTtGTCTTTGATGAAATtTCaATGGCcACaAATTA
SARS_coronavirus_civet007             ATTGCCAGAAACAACTGCTGACATtGTAGTCTTTGATGAAATCTCTATGGCTACTAATTA
SARS_coronavirus_GZ50                 ATTGCCAGAAACAACTGCTGACATtGTAGTCTTTGATGAAATCTCTATGGCTACTAATTA
SARS_coronavirus_Taiwan_TC1           ATTGCCAGAAACAACTGCTGACATtGTAGTCTTTGATGAAATCTCTATGGCTACTAATTA
Bat_coronavirus_(BtCoV/273/2005)      AcTGCCtGAAACtACTGCTGACATAGTAGTCTTTGATGAAATtTCaATGGCaACTAATTA
BtRf-BetaCoV/HeB2013                  AcTaCCtGAAACtACTGCTGACATAGTAGTCTTTGATGAAATtTCaATGGCaACTAATTA

SARS_CORONAVIRUS                      gGcCcTGgGTGTctaCAAT---AGgCTcaGTccccaggaccaGggAgACtaTggGaCTgT
Severe_acute_respiratory_syndrom      TGAtTTGAGTGTTGTCAATGCcAGAtTACGT-----------GCtAAgCACTAtGTgTAc
SARS_coronavirus_civet007             TGACTTGAGTGTTGTCAATGCTAGACTtCGT-----------GCAAAACACTACGTCTAT
SARS_coronavirus_GZ50                 TGACTTGAGTGTTGTCAATGCTAGACTtCGT-----------GCAAAACACTACGTCTAT
SARS_coronavirus_Taiwan_TC1           TGACTTGAGTGTTGTCAATGCTAGACTtCGT-----------GCAAAACACTACGTCTAT
Bat_coronavirus_(BtCoV/273/2005)      TGACTTGAGTGTcGTCAATGCTAGACTACGT-----------GCAAAACACTACGTtTAc
BtRf-BetaCoV/HeB2013                  TGACTTGAGTGTcGTCAATGCTAGACTACGT-----------GCAAAACACTACGTtTAc

SARS_CORONAVIRUS                      gaaaGaGgCCCTcCTgAAggccTTtgggGtCCCtgGgAgtTTGtgtAgTAccGGCAgCAC
Severe_acute_respiratory_syndrom      ATTGGCGACCCTGCTCAA----TTACCtGCaCCACGCACATTGCTaACTAAgGGCA-CAC
SARS_coronavirus_civet007             ATTGGCGAtCCTGCTCAA----TTACCAGCCCCcCGCACATTGCTGACTAAAGGCA-CAC
SARS_coronavirus_GZ50                 ATTGGCGAtCCTGCTCAA----TTACCAGCCCCcCGCACATTGCTGACTAAAGGCA-CAC
SARS_coronavirus_Taiwan_TC1           ATTGGCGAtCCTGCTCAA----TTACCAGCCCCcCGCACATTGCTGACTAAAGGCA-CAC
Bat_coronavirus_(BtCoV/273/2005)      ATTGGtGACCCTGCTCAA----TTACCgGCgCCACGCACATTGCTtACTAAgGGCA-CAC
BtRf-BetaCoV/HeB2013                  ATTGGtGACCCTGCTCAA----TTACCgGCgCCACGCACATTGCTtACTAAgGGCA-CAC

SARS_CORONAVIRUS                      aAGAcAtCtG-----------TCgtaGTGCA--------------AcAGGaCtAagC---
Severe_acute_respiratory_syndrom      TAGA-ACCAGAATATTTcAATTCAGTGTGtAGACTTATGAAAACtATAGGTCCAGACATG
SARS_coronavirus_civet007             TAGA-ACCAGAATATTTTAATTCAGTGTGCAGACTTATGAAAACAATAGGTCCAGACATG
SARS_coronavirus_GZ50                 TAGA-AtCAGAATATTTTAATTCAGTGTGCAGACTTATGAAAACAATAGGTCCAGACATG
SARS_coronavirus_Taiwan_TC1           TAGA-ACCAGAATATTTTAATTCAGTGTGCAGACTTATGAAAACAATAGGTCCAGACATG
Bat_coronavirus_(BtCoV/273/2005)      TtGA-ACCtGAATAcTTTAAcTCgGTGTGCAGACTcATGAAAACAATAGGTCCtGACATG
BtRf-BetaCoV/HeB2013                  TtGA-ACCtGAATAcTTTAAcTCgGTGTGCAGACTcATGAAAACAATAGGTCCtGACATG

SARS_CORONAVIRUS                      -----------------tCaTTaTtCTGt--AAtTTGacagCAgaaTtgGccCTTaAagc
Severe_acute_respiratory_syndrom      TTCCTcGGAACTTGTCGgCGTTGTCCTGCTGAAATTGTTGACACTGTGAGTGCTTTgGTT
SARS_coronavirus_civet007             TTCCTTGGAACTTGTCGCCGTTGTCCTGCTGAAATTGTTGACACTGTGAGTGCTTTAGTT
SARS_coronavirus_GZ50                 TTCCTTGGAACTTGTCGCCGTTGTCCTGCTGAAATTGTTGACACTGTGAGTGCTTTAGTT
SARS_coronavirus_Taiwan_TC1           TTCCTTGGAACTTGTCGCCGTTGTCCTGCTGAAATTGTTGACACTGTGAGTGCTTTAGTT
Bat_coronavirus_(BtCoV/273/2005)      TTtCTTGGAACaTGTCGCCGTTGTCCTGCTGAAATTGTcGACACaGTGAGTGCTTTAGTT
BtRf-BetaCoV/HeB2013                  TTtCTTGGAACaTGTCGCCGTTGTCCTGCTGAAATTGTcGACACaGTGAGTGCTTTAGTT

SARS_CORONAVIRUS                      TgTtACAATAAG--------AggCcAtGctAAaTtAGgTgAATtgTcCAtAcTaaTTTcA
Severe_acute_respiratory_syndrom      TATGAtAATAAGCTtAAAGCACAtAAAGAcAAaTCAGCTCAATGCTTtAAAAT-GTTTTA
SARS_coronavirus_civet007             TATGACAATAAGCTAAAAGCACACAAgGAgAAGTCAGCTCAATGCTTCAAAAT-GTTcTA
SARS_coronavirus_GZ50                 TATGACAATAAGCTAAAAGCACACAAgGAgAAGTCAGCTCAATGCTTCAAAAT-GTTcTA
SARS_coronavirus_Taiwan_TC1           TATGACAATAAGCTAAAAGCACACAAgGAtAAGTCAGCTCAATGCTTCAAAAT-GTTcTA
Bat_coronavirus_(BtCoV/273/2005)      TATGAtAATAAGCTAAAAGCACACAAAGAaAAGTCAGCTCAATGCTTtAAgAT-GTTTTA
BtRf-BetaCoV/HeB2013                  TATGAtAATAAGCTAAAAGCACACAAAGAaAAGTCAGCTCAATGCTTtAAAAT-GTTTTA

SARS_CORONAVIRUS                      CtAAGtTG--------aAcaATtTTaCtATCTGC-ATCtACAacC----------tGTTG
Severe_acute_respiratory_syndrom      tAAgGGTGTTATCACgCATGATGTTTC-ATCTGCAATtAACAGgCCaCAAATAGGCGTgG
SARS_coronavirus_civet007             CAAAGGTGTTATtACACATGATGTTTC-ATCTGCAATCAACAGACCTCAAATAGGCGTTG
SARS_coronavirus_GZ50                 CAAAGGTGTTATtACACATGATGTTTC-ATCTGCAATCAACAGACCTCAAATAGGCGTTG
SARS_coronavirus_Taiwan_TC1           CAAAGGTGTTATtACACATGATGTTTC-ATCTGCAATCAACAGACCTCAAATAGGCGTTG
Bat_coronavirus_(BtCoV/273/2005)      CAAgGGTGTgATCACACATGATGTTTC-ATCTGCAATCAACAGgCCcCAAATAGGtGTTG
BtRf-BetaCoV/HeB2013                  tAAgGGTGTgATCACACATGATGTTTC-ATCTGCAATCAACAGgCCcCAAATAGGtGTTG

SARS_CORONAVIRUS                      gA----------TTtCcCaCAATgCTGaTgcataAgtAaaTGTTgTaccATCaCACgTat
Severe_acute_respiratory_syndrom      TAAGAGAATTcCTTACACGtAAcCCTGCTTGGAGAAAAGCTGTcTT--TATtTCACCT--
SARS_coronavirus_civet007             TAAGAGAATTTCTTACACGCAATCCTGCTTGGAGAAAAGCTGTTTT--TATCTCACCT--
SARS_coronavirus_GZ50                 TAAGAGAATTTCTTACACGCAATCCTGCTTGGAGAAAAGCTGTTTT--TATCTCACCT--
SARS_coronavirus_Taiwan_TC1           TAAGAGAATTTCTTACACGCAATCCTGCTTGGAGAAAAGCTGTTTT--TATCTCACCT--
Bat_coronavirus_(BtCoV/273/2005)      TAAGAGAgTTTCTTACgCGCAAcCCTGCTTGGAGAAAAGCTGTTTT--cATtTCACCa--
BtRf-BetaCoV/HeB2013                  TAAGAGAgTTTCTTACgCGCAAcCCTGCTTGGAGAAAAGCTGTTTT--cATtTCACCa--

SARS_CORONAVIRUS                      ttttaTATgtgTtAtAGtcTGgTaTgaC------AAcCaTtaGtTTGgCT------gCTG
Severe_acute_respiratory_syndrom      -----TATAATTCACAGAATGCTGTAGCcTCAAAgATtTTgGGAcTaCCaACtCAAACTG
SARS_coronavirus_civet007             -----TATAATTCACAGAAcGCTGTAGCTTCAAAAATCTTAGGATTGCCTACGCAgACTG
SARS_coronavirus_GZ50                 -----TATAATTCACAGAAcGCTGTAGCTTCAAAAATCTTAGGATTGCCTACGCAgACTG
SARS_coronavirus_Taiwan_TC1           -----TATAATTCACAGAAcGCTGTAGCTTCAAAAATCTTAGGATTGCCTACGCAgACTG
Bat_coronavirus_(BtCoV/273/2005)      -----TATAATTCACAGAATGCaGTgGCTTCtAAAATtTTAGGATTaCCcACtCAAACTG
BtRf-BetaCoV/HeB2013                  -----TATAATTCACAGAATGCaGTgGCTTCtAAAATtTTAGGATTaCCcACtCAAACTG

SARS_CORONAVIRUS                      TTG-----TaAgAGG----------------TaTtATgTTCAagggAAC-------ACAa
Severe_acute_respiratory_syndrom      TTGATTCATCACAGGGCTCaGAATATGACTATGTCATATTCACtCAAACCACTGAAACAG
SARS_coronavirus_civet007             TTGATTCATCACAGGGtTCTGAATATGACTATGTCATATTCACACAAACtACTGAAACAG
SARS_coronavirus_GZ50                 TTGATTCATCACAGGGtTCTGAATATGACTATGTCATATTCACACAAACtACTGAAACAG
SARS_coronavirus_Taiwan_TC1           TTGATTCATCACAGGGtTCTGAATATGACTATGTCATATTCACACAAACtACTGAAACAG
Bat_coronavirus_(BtCoV/273/2005)      TTGATTCtTCACAGGGCTCaGAgTATGACTATGTCATATTCACACAAACCACTGAgACcG
BtRf-BetaCoV/HeB2013                  TTGAcTCtTCACAGGGCTCgGAgTATGACTATGTCATATTCACACAAACCACTGAgACcG

SARS_CORONAVIRUS                      CcatCTCTTGcAtTGTtgA------tAATGTtGtTg-----AGtGCAtcAtTatccaaCt
Severe_acute_respiratory_syndrom      CtCACTCTTGTAATGTaAACaGaTTtAATGTtGCTATtACcAGAGCAAAAgT---aGGCA
SARS_coronavirus_civet007             CACACTCTTGTAATGTCAACCGCTTCAATGTGGCTATCACAAGgGCAAAAAT---TGGCA
SARS_coronavirus_GZ50                 CACACTCTTGTAATGTCAACCGCTTCAATGTGGCTATCACAAGgGCAAAAAT---TGGCA
SARS_coronavirus_Taiwan_TC1           CACACTCTTGTAATGTCAACCGCTTCAATGTGGCTATCACAAGgGCAAAAAT---TGGCA
Bat_coronavirus_(BtCoV/273/2005)      CACACTCTTGcAATGTCAACCGCTTtAATGTGGCTATCACAAGAGCAAAAAT---TGGCA
BtRf-BetaCoV/HeB2013                  CACACTCTTGcAATGTCAACCGCTTCAATGTGGCTATCACAAGAGCAAAAAT---TGGCA

SARS_CORONAVIRUS                      TTcTaaGCATAgTG-------aAaAgCaTTgT------CTGCAtagcACtAGT-------
Severe_acute_respiratory_syndrom      TacTtTGCATAATGTCTGATAGAGAcCTTTATGACAAgtTGCAATTTACAAGTCTtGAAA
SARS_coronavirus_civet007             TTTTGTGCATAATGTCTGATAGAGATCTTTATGACAAACTGCAATTTACAAGTCTAGAAA
SARS_coronavirus_GZ50                 TTTTGTGCATAATGTCTGATAGAGATCTTTATGACAAACTGCAATTTACAAGTCTAGAAA
SARS_coronavirus_Taiwan_TC1           TTTTGTGCATAATGTCTGATAGAGATCTTTATGACAAACTGCAATTTACAAGTCTAGAAA
Bat_coronavirus_(BtCoV/273/2005)      TTTTGTGCATAATGTCTGAcAGAGATCTTTATGAtAAgCTGCAATTTACgAGTCTgGAAg
BtRf-BetaCoV/HeB2013                  TTTTGTGCATAATGTCTGAcAGAGATCTTTATGAtAAgCTGCAATTTACgAGTCTgGAAg

SARS_CORONAVIRUS                      ----------aAcTtTtGCcctcTTgtcctCAG-------AtCTaGcCTgTTTAtacatt
Severe_acute_respiratory_syndrom      TtCCACGTaGgAATGTGGCaACtTTACAAGCtGAAAATGTAACaGGACTCTTTA------
SARS_coronavirus_civet007             TACCACGTCGCAATGTGGCTACATTACAAGCAGAAAATGTAACTGGACTtTTTA------
SARS_coronavirus_GZ50                 TACCACGTCGCAATGTGGCTACATTACAAGCAGAAAATGTAACTGGACTtTTTA------
SARS_coronavirus_Taiwan_TC1           TACCACGTCGCAATGTGGCTACATTACAAGCAGAAAATGTAACTGGACTtTTTA------
Bat_coronavirus_(BtCoV/273/2005)      TACCACGTCGCAATGTGGCTACgTTACAAGCAGAAAATGTAACTGGACTCTTTA------
BtRf-BetaCoV/HeB2013                  TACCACGTCGCAATGTGGCTACgTTACAAGCAGAAAATGTAACTGGACTCTTTA------

SARS_CORONAVIRUS                      tGGgtcaTAGcttGATCAgccaTctTtTcCAaCtTACgttG---------CAtggCtGCa
Severe_acute_respiratory_syndrom      AaGAtTGTAGTAAGgTaATcACTGGgtTaCATCCTACACAGGCACCTACACACCTCAGtG
SARS_coronavirus_civet007             AGGACTGTAGTAAGATCATTACTGGTCTTCATCCTACACAGGCACCTACACACCTCAGCG
SARS_coronavirus_GZ50                 AGGACTGTAGTAAGATCATTACTGGTCTTCATCCTACACAGGCACCTACACACCTCAGCG
SARS_coronavirus_Taiwan_TC1           AGGACTGTAGTAAGATCATTACTGGTCTTCATCCTACACAGGCACCTACACACCTCAGCG
Bat_coronavirus_(BtCoV/273/2005)      AGGACTGTAGTAAaATCATTACTGGTCTTCAcCCTACACAGGCACCgACACACCTCAGtG
BtRf-BetaCoV/HeB2013                  AGGACTGTAGTAAGATCATTACTGGTCTTCAcCCTACACAGGCACCgACACACCTCAGtG

SARS_CORONAVIRUS                      TcacggTcAAATTCAgattT-----------------------AGcCAcAttcAAaGACt
Severe_acute_respiratory_syndrom      TTGAcActAAATTCAAaACTGAAGGtTTATGTGTTGACATACCtGGCATACCtAAGGACA
SARS_coronavirus_civet007             TTGATATAAAgTTCAAGACTGAAGGATTATGTGTTGACATACCAGGCATACCAAAGGACA
SARS_coronavirus_GZ50                 TTGATATAAAgTTCAAGACTGAAGGATTATGTGTTGACATACCAGGCATACCAAAGGACA
SARS_coronavirus_Taiwan_TC1           TTGATATAAAgTTCAAGACTGAAGGATTATGTGTTGACATACCAGGCATACCAAAGGACA
Bat_coronavirus_(BtCoV/273/2005)      TTGATActAAATTCAAGACTGAAGGccTcTGTGTTGACATACCAGGCATACCtAAGGACA
BtRf-BetaCoV/HeB2013                  TTGATActAAATTCAAGACTGAAGGccTcTGTGTTGACATACCAGGCATACCtAAGGACA

SARS_CORONAVIRUS                      TcttCaAC----------TtTtTAaGAacaacTTCAgAATcAccATTAgCA---------
Severe_acute_respiratory_syndrom      TGACCTAtaGaAGACTCATCTCTATGATGGGTTTtAAAATGA--ATTAtCAAGTtAATGG
SARS_coronavirus_civet007             TGACCTACCGTAGACTCATCTCTATGATGGGTTTCAAAATGA--ATTACCAAGTCAATGG
SARS_coronavirus_GZ50                 TGACCTACCGTAGACTCATCTCTATGATGGGTTTCAAAATGA--ATTACCAAGTCAATGG
SARS_coronavirus_Taiwan_TC1           TGACCTACCGTAGACTCATCTCTATGATGGGTTTCAAAATGA--ATTACCAAGTCAATGG
Bat_coronavirus_(BtCoV/273/2005)      TGACCTAtCGcAGACTCATCTCTATGATGGGcTTCAAAATGA--AcTAtCAAGTCAATGG
BtRf-BetaCoV/HeB2013                  TGACCTAtCGcAGACTCATCTCcATGATGGGcTTCAAAATGA--AcTAtCAAGTCAATGG

SARS_CORONAVIRUS                      ----------------AcagCCtGCtcAtAAGCTtcTtGagcaGTa---GCAaaagcTGc
Severe_acute_respiratory_syndrom      TTACCCTAAcATGTTTATCACCCGCGAAGAAGCTATaaGaCAtGTaCGTGCATGGATTGG
SARS_coronavirus_civet007             TTACCCTcATATGTTTATCACCCGCGAAGAAGCTATTCGTCACGTTCGTGCgTGGATTGG
SARS_coronavirus_GZ50                 TTACCCTAATATGTTTATCACCCGCGAAGAAGCTATTCGTCACGTTCGTGCgTGGATTGG
SARS_coronavirus_Taiwan_TC1           TTACCCTAATATGTTTATCACCCGCGAAGAAGCTATTCGTCACGTTCGTGCgTGGATTGG
Bat_coronavirus_(BtCoV/273/2005)      TTACCCTAATATGTTTATCACCCGtGAAGAAGCcATTCGTCACGTTCGTGCATGGATTGG
BtRf-BetaCoV/HeB2013                  TTACCCTAATATGTTTATCACCCGtGAAGAAGCcATTCGTCACGTTCGTGCATGGATTGG

SARS_CORONAVIRUS                      aTaTGATGgAagGG----------AACTAaActctGAgGCTaTaGcTtgTAAggTtgCcC
Severe_acute_respiratory_syndrom      CTTcGATGTcGAGGGgTGTCATGCtACTAGA----GAaGCTGTtGGTACcAAttTACCTt
SARS_coronavirus_civet007             CTTTGATGTAGAGGGCTGTCATGCAACTAGA----GATGCTGTGGGTACTAACCTACCTC
SARS_coronavirus_GZ50                 CTTTGATGTAGAGGGCTGTCATGCAACTAGA----GATGCTGTGGGTACTAACCTACCTC
SARS_coronavirus_Taiwan_TC1           CTTTGATGTAGAGGGCTGTCATGCAACTAGA----GATGCTGTGGGTACTAACCTACCTC
Bat_coronavirus_(BtCoV/273/2005)      tTTcGAcGTtGAGGGtTGTCATGCAACaAGg----GATGCTGTGGGaACTAACCTACCaC
BtRf-BetaCoV/HeB2013                  tTTcGAcGTtGAGGGtTGTCATGCAACaAGg----GATGCTGTGGGaACTAACCTACCaC

SARS_CORONAVIRUS                      TgttGtccaGcaTTTCTtCA-------------------cAaaGctTGtTTATGTc----
Severe_acute_respiratory_syndrom      TaCAGCTAGGtTTTTCTACAGGTGTTAACcTAGTtGCTGTACCtACaGGTTATGTTGAtA
SARS_coronavirus_civet007             TCCAGCTAGGATTTTCTACAGGTGTTAACTTAGTAGCTGTACCGACTGGTTATGTTGACA
SARS_coronavirus_GZ50                 TCCAGCTAGGATTTTCTACAGGTGTTAACTTAGTAGCTGTACCGACTGGTTATGTTGACA
SARS_coronavirus_Taiwan_TC1           TCCAGCTAGGATTTTCTACAGGTGTTAACTTAGTAGCTGTACCGACTGGTTATGTTGACA
Bat_coronavirus_(BtCoV/273/2005)      TCCAatTAGGATTTTCgACAGGTGTTAACTTAGTAGCTGTACCcACTGGcTATGTTGACA
BtRf-BetaCoV/HeB2013                  TCCAatTAGGATTTTCgACAGGTGTTAACTTAGTAGCTGTACCcACTGGcTATGTTGACA

SARS_CORONAVIRUS                      ----------tACAGcAccCtgCAtgG--AAaGCAAAAC--------aGaaAgtAGTgaA
Severe_acute_respiratory_syndrom      CacctAATAAtACAGAtTTttCCAGAGTTAgTGCtAAACCaCCgCCtGGaGAtCAaTTTA
SARS_coronavirus_civet007             CTGAAAATAACACAGAATTCACCAGAGTTAATGCAAAACCTCCACCAGGTGACCAGTTTA
SARS_coronavirus_GZ50                 CTGAAAATAACACAGAATTCACCAGAGTTAATGCAAAACCTCCACCAGGTGACCAGTTTA
SARS_coronavirus_Taiwan_TC1           CTGAAAATAACACAGAATTCACCAGAGTTAATGCAAAACCTCCACCAGGTGACCAGTTTA
Bat_coronavirus_(BtCoV/273/2005)      CTGAgAATAACACAGAgTTCACtAGAGTcAATGCAAAACCTCCtCCAGGTGACCAaTTcA
BtRf-BetaCoV/HeB2013                  CTGAgAATAAtACAGAgTTCACtAGAGTcAATGCAAAACCTCCtCCAGGTGACCAaTTcA

SARS_CORONAVIRUS                      AcCATtTT------------TtCAAAGGCT------------------------------
Severe_acute_respiratory_syndrom      AACAcCTcATACCACTtATGTACAAAGGacTtCCtTGGAATGTAGTGCGTATaAAGATtG
SARS_coronavirus_civet007             AACATCTTATACCACTCATGTAtAAAGGCTTGCCCTGGAATGTAGTGCGTATTAAGATAG
SARS_coronavirus_GZ50                 AACATCTTATACCACTCATGTAtAAAGGCTTGCCCTGGAATGTAGTGCGTATTAAGATAG
SARS_coronavirus_Taiwan_TC1           AACATCTTATACCACTCATGTAtAAAGGCTTGCCCTGGAATGTAGTGCGTATTAAGATAG
Bat_coronavirus_(BtCoV/273/2005)      AACATCTTATACCACTaATGTACAAgGGCTTGCCCTGGAATGTtGTGCGTATTAAGATcG
BtRf-BetaCoV/HeB2013                  AACATCTTATACCACTaATGTACAAgGGCTTGCCCTGGAATGTtGTGCGTATTAAGATcG

SARS_CORONAVIRUS                      ---------TCAGTagTAtctTtagctAAgaGAaTGTCA-------TtGTGT-----aac
Severe_acute_respiratory_syndrom      TACAAATGtTaAGTGAcACACT----tAAAaatcTcTCtGACAGAGTCGTaTTtGTCtTa
SARS_coronavirus_civet007             TACAAATGCTCAGTGATACACT----GAAAGGATTGTCAGACAGAGTCGTGTTCGTCCTT
SARS_coronavirus_GZ50                 TACAAATGCTCAGTGATACACT----GAAAGGATTGTCAGACAGAGTCGTGTTCGTCCTT
SARS_coronavirus_Taiwan_TC1           TACAAATGCTCAGTGATACACT----GAAAGGATTGTCAGACAGAGTCGTGTTCGTCCTT
Bat_coronavirus_(BtCoV/273/2005)      TACAAATGCTCAGTGAcACgCT----GAAgGGATTGTCtGACAGAGTCGTGTTtGTCCTT
BtRf-BetaCoV/HeB2013                  TACAAATGCTCAGTGAcACgCT----GAAgGGATTaTCtGACAGAGTCGTGTTtGTCCTT

SARS_CORONAVIRUS                      TGGaCaCA-----TTGAGCccACAattTagATGAtGatTcTacTCtgagTTGttgcaaAa
Severe_acute_respiratory_syndrom      TGGGCaCATGGCTTTGAGtTgACA---TCtATGAAGTATTTTGTgAAaATaG-----GAC
SARS_coronavirus_civet007             TGGGCGCATGGCTTTGAGCTTACA---TCAATGAAGTAcTTTGTCAAGATTG-----GAC
SARS_coronavirus_GZ50                 TGGGCGCATGGCTTTGAGCTTACA---TCAATGAAGTAcTTTGTCAAGATTG-----GAC
SARS_coronavirus_Taiwan_TC1           TGGGCGCATGGCTTTGAGCTTACA---TCAATGAAGTAcTTTGTCAAGATTG-----GAC
Bat_coronavirus_(BtCoV/273/2005)      TGGGCtCATGGCTTTGAaCTTACA---TCAATGAAGTATTTTGTCAAGATTG-----GAC
BtRf-BetaCoV/HeB2013                  TGGGCtCATGGCTTTGAaCTTACA---TCAATGAAGTATTTTGTCAAGATTG-----GAC

SARS_CORONAVIRUS                      CTGAgAGtAaGacT----------ACtgAtGTGCActTTa-----------CATCtGACA
Severe_acute_respiratory_syndrom      CTGAgcGcACcTGTTGTCTaTGTGAtAgACGTGCcACaTGCTTTTCcACTgCtTCAGACA
SARS_coronavirus_civet007             CTGAAAGAACGTGTTGTCTGTGTGACAAACGTGCAACTTGCTTTTCTACTTCATCAGAtA
SARS_coronavirus_GZ50                 CTGAAAGAACGTGTTGTCTGTGTGACAAACGTGCAACTTGCTTTTCTACTTCATCAGAtA
SARS_coronavirus_Taiwan_TC1           CTGAAAGAACGTGTTGTCTGTGTGACAAACGTGCAACTTGCTTTTCTACTTCATCAGAtA
Bat_coronavirus_(BtCoV/273/2005)      CaGAAAGAACGTGTTGTCTGTGTGACAAgCGTGCAACTTGCTTcTCTACTTCATCtGACA
BtRf-BetaCoV/HeB2013                  CaGAAAGAACGTGTTGTCTGTGTGACAAgCGTGCAACTTGCTTcTCTACTTCATCtGACA

SARS_CORONAVIRUS                      tTTtaGaCTG---------TaCaGTGG-------CTActTtgATAcaaggTTTgccAcca
Severe_acute_respiratory_syndrom      CTTATGCCTGtTGGcATCATTCTaTtGGaTTTGAtTAcGTCTATAAtCCgTTTATGATTG
SARS_coronavirus_civet007             CTTATGCCTGCTGGAATCATTCTGTGGGTTTTGACTATGTCTATAACCCATTTATGATTG
SARS_coronavirus_GZ50                 CTTATGCCTGCTGGAATCATTCTGTGGGTTTTGACTATGTCTATAACCCATTTATGATTG
SARS_coronavirus_Taiwan_TC1           CTTATGCCTGCTGGAATCATTCTGTGGGTTTTGACTATGTCTATAACCCATTTATGATTG
Bat_coronavirus_(BtCoV/273/2005)      CTTATGCtTGCTGGAAcCAcTCTGTGGGTTTTGACTATGTCTAcAACCCATTcATGATTG
BtRf-BetaCoV/HeB2013                  CTTATGCtTGCTGGAATCAcTCTGTGGGTTTTGACTATGTCTAcAACCCgTTTATGATTG

SARS_CORONAVIRUS                      AcaccCAaCAAT------TTAatGtTgAgtTTgAagGCAtCtATGct----ATTcTtgGG
Severe_acute_respiratory_syndrom      ATGTTCAaCAATGGGGtTTTACAGGTAACCTaCAaAGCAACCATGAtCtgtATTGTCAaG
SARS_coronavirus_civet007             ATGTTCAGCAgTGGGGCTTTACgGGTAACCTTCAGAGtAACCATGACCAACATTGcCAGG
SARS_coronavirus_GZ50                 ATGTTCAGCAgTGGGGCTTTACgGGTAACCTTCAGAGtAACCATGACCAACATTGcCAGG
SARS_coronavirus_Taiwan_TC1           ATGTTCAGCAgTGGGGCTTTACgGGTAACCTTCAGAGtAACCATGACCAACATTGcCAGG
Bat_coronavirus_(BtCoV/273/2005)      ATGTcCAGCAATGGGGCTTTACAGGTAACCTTCAGAGCAACCATGACCAACAcTGTCAaG
BtRf-BetaCoV/HeB2013                  ATGTcCAGCAATGGGGtcTTACAGGTAACCTTCAGAGCAACCATGAtCAACAcTGTCAaG

SARS_CORONAVIRUS                      TgggagtagtcCcTGtgAATtCAtATaT--CTAaac---------TCcTGtgTAGAaacT
Severe_acute_respiratory_syndrom      Tc---------CATGGtAATGCACATGTaGCTAGTTGTGATGCaATCATGACTAGgTGTc
SARS_coronavirus_civet007             TA---------CATGGAAATGCACATGTGGCTAGTTGTGATGCTATCATGACTAGATGTT
SARS_coronavirus_GZ50                 TA---------CATGGAAATGCACATGTGGCTAGTTGTGATGCTATCATGACTAGATGTT
SARS_coronavirus_Taiwan_TC1           TA---------CATGGAAATGCACATGTGGCTAGTTGTGATGCTATCATGACTAGATGTT
Bat_coronavirus_(BtCoV/273/2005)      Tg---------CATGGtAAcGCtCATGTGGCTAGcTGTGATGCTATCATGACTAGATGTc
BtRf-BetaCoV/HeB2013                  Tg---------CATGGtAATGCtCATGTGGCTAGTTGTGATGCcATCATGACTAGATGTc

SARS_CORONAVIRUS                      aAGtAaTCataaaCAccAagagTcaGTctAaaGtagcGgTTG------------------
Severe_acute_respiratory_syndrom      TAGCtGTC-----CAcGAGTGCTTTGTTAAGCGtGTTGAcTGGaCTaTTGAATAtCCTAT
SARS_coronavirus_civet007             TAGCAGTC-----CATGAGTGCTTTGTTAAGCGCGTTGATTGGTCTGTTGAATACCCTAT
SARS_coronavirus_GZ50                 TAGCAGTC-----CATGAGTGCTTTGTTAAGCGCGTTGATTGGTCTGTTGAATACCCTAT
SARS_coronavirus_Taiwan_TC1           TAGCAGTC-----CATGAGTGCTTTGTTAAGCGCGTTGATTGGTCTGTTGAATACCCTAT
Bat_coronavirus_(BtCoV/273/2005)      TtGCAGTC-----CATGAGTGCTTTGTTAAGCGCGTTGATTGGTCTGTTGAATACCCggT
BtRf-BetaCoV/HeB2013                  TtGCAGTC-----CATGAGTGCTTTGTTAAGCGCGTTGATTGGTCTGTTGAATACCCgAT

SARS_CORONAVIRUS                      ---AGtAaAcaAA--agAGGccAAaGtAaCaaGtAcAAAAaTAgcctAAgAaAcaaT---
Severe_acute_respiratory_syndrom      aATtGGtGATGAACTGAAGaTTAATGCgGCTTGtAGAAAgGTt---CAACACATGGTTGT
SARS_coronavirus_civet007             TATAGGAGATGAACTGAgGGTTAATtCtGCTTGCAGAAAAGTA---CAACACATGGTTGT
SARS_coronavirus_GZ50                 TATAGGAGATGAACTGAgGGTTAATtCtGCTTGCAGAAAAGTA---CAACACATGGTTGT
SARS_coronavirus_Taiwan_TC1           TATAGGAGATGAACTGAgGGTTAATtCtGCTTGCAGAAAAGTA---CAACACATGGTTGT
Bat_coronavirus_(BtCoV/273/2005)      TATtGGAGATGAACTGAAGaTcAATGCAGCTTGCAGAAAAGTA---CAgCAtATGGTTGT
BtRf-BetaCoV/HeB2013                  TATtGGAGATGAACTGAAGaTcAAcGCAGCaTGCAGAAAAGTA---CAgCACATGGTTGT

SARS_CORONAVIRUS                      -AAactaGCATTatacaCTGAagTgtaTTaCCAGTTaTgaAgaAaATaGGgcaAtActCA
Severe_acute_respiratory_syndrom      tAAagCTGCATTatTaGCaGA--cAAaTTCCCAGTTCTTCAcGACATTGG---tAAcCCt
SARS_coronavirus_civet007             GAAGTCTGCATTGCTTGCTGA--TAAGTTtCCAGTTCTTCATGACATTGG---AAATCCA
SARS_coronavirus_GZ50                 GAAGTCTGCATTGCTTGCTGA--TAAGTTtCCAGTTCTTCATGACATTGG---AAATCCA
SARS_coronavirus_Taiwan_TC1           GAAGTCTGCATTGCTTGCTGA--TAAGTTtCCAGTTCTTCATGACATTGG---AAATCCA
Bat_coronavirus_(BtCoV/273/2005)      tAAGTCTGCATTGCTTGCTGA--cAAGTTCCCAGTTCTgCATGAtATaGG---AAATCCA
BtRf-BetaCoV/HeB2013                  tAAaTCTGCATTGCTTGCTGA--TAAGTTCCCAGTTCTTCATGAtATaGG---AAATCCA

SARS_CORONAVIRUS                      AcacacATaAAaacaaTACCTCtGGCcaAA--AacATGacAGTTgtaaCTACaccTGagt
Severe_acute_respiratory_syndrom      AAaGCTATtAAGTGTGTACCTCAaGCTGAtGTAGAATGGAAGTT----CTAtG-ATGCaC
SARS_coronavirus_civet007             AAGGCTATCAAGTGTGTgCCTCAGGCTGAAGTAGAATGGAAGTT----CTACG-ATGCTC
SARS_coronavirus_GZ50                 AAGGCTATCAAGTGTGTgCCTCAGGCTGAAGTAGAATGGAAGTT----CTACG-ATGCTC
SARS_coronavirus_Taiwan_TC1           AAGGCTATCAAGTGTGTgCCTCAGGCTGAAGTAGAATGGAAGTT----CTACG-ATGCTC
Bat_coronavirus_(BtCoV/273/2005)      AAGGCTATtAAaTGTGTACCgCAGGCTGAcGTAGAATGGAAGTT----CTACG-ATGtTC
BtRf-BetaCoV/HeB2013                  AAGGCcATtAAaTGTGTACCgCAGGCTGAcGTAGAATGGAAGTT----CTACG-ATGCTC

SARS_CORONAVIRUS                      AGttA-GaAGTaACAgAGaTTATAAg----------------------------------
Severe_acute_respiratory_syndrom      AGCCtTGTAGTGACAAAGCTTATAAAATAGAAGAAtTaTTCTATTCTTATGCCACACATt
SARS_coronavirus_civet007             AGCCATGTAGTGACAAAGCTTAcAAAATAGAgGAACTCTTCTATTCTTATGCtACACATC
SARS_coronavirus_GZ50                 AGCCATGTAGTGACAAAGCTTAcAAAATAGAgGAACTCTTCTATTCTTATGCtACACATC
SARS_coronavirus_Taiwan_TC1           AGCCATGTAGTGACAAAGCTTAcAAAATAGAgGAgCTCTTCTATTCTTATGCtACACATC
Bat_coronavirus_(BtCoV/273/2005)      AGCCATGcAGTGACAAgGCTTATAAgATAGAAGAACTCTTCTAcTCcTATGCCACcCAcC
BtRf-BetaCoV/HeB2013                  AGCCATGcAGTGACAAgGCTTATAAgATAGAAGAACTCTTCTATTCcTATGCCACcCAcC

SARS_CORONAVIRUS                      ------AgccCAC--ATGGaaaTgGCTTGaTcTaaAgcatTAcCaTa-------------
Severe_acute_respiratory_syndrom      ctGACAAATTCACaGATGGTGTaTGCcTaTTTTGGAATTGcAAtGTcGATaGaTAtCCtG
SARS_coronavirus_civet007             ACGAtAAATTCACTGATGGTGTTTGtTTGTTTTGGAATTGTAACGTTGATCGTTACCCAG
SARS_coronavirus_GZ50                 ACGAtAAATTCACTGATGGTGTTTGtTTGTTTTGGAATTGTAACGTTGATCGTTACCCAG
SARS_coronavirus_Taiwan_TC1           ACGAtAAATTCACTGATGGTGTTTGtTTGTTTTGGAATTGTAACGTTGATCGTTACCCAG
Bat_coronavirus_(BtCoV/273/2005)      AtGACAAATTCACTGATGGTGTTTGCTTGTTTTGGAAcTGTAACGTTGATCGTTAtCCAG
BtRf-BetaCoV/HeB2013                  AtGACAAATTCACTGATGGTGTTTGCTTGTTTTGGAAcTGTAACGTTGATCGTTACCCgG

SARS_CORONAVIRUS                      ---------------aTAaacTTtAtAaAcGAG---TGTCAA------------------
Severe_acute_respiratory_syndrom      CtAATtCcATTGTtTGTAGaTTTGACACtAGAGTgcTaTCtAACcTtAACTTgCCtGGtT
SARS_coronavirus_civet007             CCAATGCAATTGTGTGTAGGTTTGACACAAGAGTCTTGTCAAACTTGAACTTACCAGGCT
SARS_coronavirus_GZ50                 CCAATGCAATTGTGTGTAGGTTTGACACAAGAGTCTTGTCAAACTTGAACTTACCAGGCT
SARS_coronavirus_Taiwan_TC1           CCAATGCAATTGTGTGTAGGTTTGACACAAGAGTCTTGTCAAACTTGAACTTACCAGGCT
Bat_coronavirus_(BtCoV/273/2005)      CCAATGCtATcGTtTGTAGGTTTGAtACAcGAGTtcTcTCcAAtcTaAACcTACCtGGtT
BtRf-BetaCoV/HeB2013                  CCAAcGCAATTGTtTGTAGGTTTGAtACAAGAGTtTTaTCtAACTTaAACcTACCtGGtT

SARS_CORONAVIRUS                      ---------GacaTTcaTAaGTG-------------TCCACACTCt--------------
Severe_acute_respiratory_syndrom      GTGATGGTGGcAGTTTGTATGTaAATAAACATGCATTCCACACaCCAGCTTTtGATAAAA
SARS_coronavirus_civet007             GTGATGGTGGTAGTTTGTATGTGAATAAgCATGCATTCCACACTCCAGCTTTCGATAAAA
SARS_coronavirus_GZ50                 GTGATGGTGGTAGTTTGTATGTGAATAAgCATGCATTCCACACTCCAGCTTTCGATAAAA
SARS_coronavirus_Taiwan_TC1           GTGATGGTGGTAGTTTGTATGTGAATAAgCATGCATTCCACACTCCAGCTTTCGATAAAA
Bat_coronavirus_(BtCoV/273/2005)      GTGATGGTGGTAGTcTGTATGTaAAcAAACATGCATTCCACACTCCAGCTTTtGATAAgA
BtRf-BetaCoV/HeB2013                  GTGATGGcGGTAGTcTGTATGTaAAcAAACATGCATTCCACACgCCAGCcTTtGATAAgA

SARS_CORONAVIRUS                      -------------ccTAgcACcATcatCATaC-------------AcAGTtCTTGc----
Severe_acute_respiratory_syndrom      GTGCtTTTgtTAATTTAAAACAATTaCCATTtTTcTAtTAcTCTGAcAGTCCaTGTGAGT
SARS_coronavirus_civet007             GTGCATTTACTAATTTAAAgCAATTGCCtTTCTTTTACTATTCTGATAGTCCTTGTGAGT
SARS_coronavirus_GZ50                 GTGCATTTACTAATTTAAAgCAATTGCCtTTCTTTTACTATTCTGATAGTCCTTGTGAGT
SARS_coronavirus_Taiwan_TC1           GTGCATTTACTAATTTAAAgCAATTGCCtTTCTTTTACTATTCTGATAGTCCTTGTGAGT
Bat_coronavirus_(BtCoV/273/2005)      GTGCATTTACTcATTTgAAACAAcTGCCATTCTTTTAtTAcTCTGATAGTCCTTGcGAGT
BtRf-BetaCoV/HeB2013                  GTGCtTTTtCTAATcTtAAACAATTGCCcTTtTTcTAtTATTCaGAcAGTCCcTGTGAGT

SARS_CORONAVIRUS                      ------------------TGTC--ATAagGATTA-GTaaCACT-AcAgCTGaTgCaTacA
Severe_acute_respiratory_syndrom      CTCATGGaAAACAAGTAGTGTCAGATATaGATTATGTaCCACTaAAgTCTGCTACGTGTA
SARS_coronavirus_civet007             CTCATGGCAAACAAGTAGTGTCgGATATTGATTATGTTCCACTCAAATCTGCTACGTGTA
SARS_coronavirus_GZ50                 CTCATGGCAAACAAGTAGTGTCgGATATTGATTATGTTCCACTCAAATCTGCTACGTGTA
SARS_coronavirus_Taiwan_TC1           CTCATGGCAAACAAGTAGTGTCgGATATTGATTATGTTCCACTCAAATCTGCTACGTGTA
Bat_coronavirus_(BtCoV/273/2005)      CgCATGGCAAgCAgGTtGTGTCAGAcATTGATTATGTTCCACTaAAgTCTGCaACGTGTA
BtRf-BetaCoV/HeB2013                  CTCATGGCAAACAgGTgGTGTCAGATATTGATTATGTTCCACTCAAATCTGCTACGTGTA

SARS_CORONAVIRUS                      TaACACagT---------------CTtTTaGCttaAaACCAgaCAAActAGTAtCaACca
Severe_acute_respiratory_syndrom      TaACACGtTGCAATTTAGGTGGTGCTGTcTGt-AGACAtCATGCtAATGAGTACaGAttG
SARS_coronavirus_civet007             TTACACGATGCAATTTgGGTGGTGCTGTTTGC-AGACACCATGCAAATGAGTACCGACAG
SARS_coronavirus_GZ50                 TTACACGATGCAATTTAGGTGGTGCTGTTTGC-AGACACCATGCAAATGAGTACCGACAG
SARS_coronavirus_Taiwan_TC1           TTACACGATGCAATTTAGGTGGTGCTGTTTGC-AGACACCATGCAAATGAGTACCGACAG
Bat_coronavirus_(BtCoV/273/2005)      TTACACGtTGCAAccTgGGTGGaGCTGTTTGC-AGACAtCATGCAAATGAGTAtaGACAG
BtRf-BetaCoV/HeB2013                  TaACACGgTGCAAcTTAGGTGGaGCTGTTTGC-AGACAtCATGCAAATGAGTAtaGACAa

SARS_CORONAVIRUS                      TAtccA-------AccATgTcATaA------------------TAcGcATcacCcAACtA
Severe_acute_respiratory_syndrom      TAtcTcGATGCtTATAAcATGATGATcTCaGCTGGcTTTAGCtTgTGGgTTTACAAACAA
SARS_coronavirus_civet007             TACTTgGATGCATATAATATGATGATTTCTGCTGGATTTAGCCTATGGATTTACAAACAA
SARS_coronavirus_GZ50                 TACTTgGATGCATATAATATGATGATTTCTGCTGGATTTAGCCTATGGATTTACAAACAA
SARS_coronavirus_Taiwan_TC1           TACTTgGATGCATATAATATGATGATTTCTGCTGGATTTAGCCTATGGATTTACAAACAA
Bat_coronavirus_(BtCoV/273/2005)      TACTTAGATGCATAcAAcATGATGATTTCaGCTGGtTTTAGCCTATGGATTTACAAACAg
BtRf-BetaCoV/HeB2013                  TACTTAGATGCATATAAcATGATGATTTCTGCcGGcTTTAGCCTcTGGATTTACAAACAg

SARS_CORONAVIRUS                      gcaGgcAtaTAgAcCaTaTtaA--------AatAaGcTACAGtGgcaAGAgAAgGTaaCa
Severe_acute_respiratory_syndrom      TTTGATACTTATAACCTcTGGAAcACtTTTACaAGacTtCAGAGTTTAGAAAATGTGGCT
SARS_coronavirus_civet007             TTTGATACTTATAACCTGTGGAATACATTTACCAGGTTACAGAGTTTAGAAAATGTGGCT
SARS_coronavirus_GZ50                 TTTGATACTTATAACCTGTGGAATACATTTACCAGGTTACAGAGTTTAGAAAATGTGGCT
SARS_coronavirus_Taiwan_TC1           TTTGATACTTATAACCTGTGGAATACATTTACCAGGTTACAGAGTTTAGAAAATGTGGCT
Bat_coronavirus_(BtCoV/273/2005)      TTTGAcACaTAcAACCTGTGGAAcACcTTTACCAGGTTACAGAGTcTAGAAAATGTGGCT
BtRf-BetaCoV/HeB2013                  TTcGATACaTATAACCTGTGGAATACcTTTACCAGGTTACAGAGTcTAGAAAATGTGGCT

SARS_CORONAVIRUS                      aAaA------caAAcAgAGaAatgCAtgcttatgTTTGAcaaACAtCAttGcaaAAGCAg
Severe_acute_respiratory_syndrom      TtTAATGTTGTaAATAAgGGA---CAC-------TTTGATGGACA-acagGGtGAAGtAC
SARS_coronavirus_civet007             TATAATGTTGTTAATAAAGGA---CAC-------TTTGATGGACA-CgCCGGCGAAGCAC
SARS_coronavirus_GZ50                 TATAATGTTGTTAATAAAGGA---CAC-------TTTGATGGACA-CgCCGGCGAAGCAC
SARS_coronavirus_Taiwan_TC1           TATAATGTTGTTAATAAAGGA---CAC-------TTTGATGGACA-CgCCGGCGAAGCAC
Bat_coronavirus_(BtCoV/273/2005)      TAcAATGTTaTTAATAAAGGA---CAC-------TTTGATGGACA-gAttGGCGAAGCAC
BtRf-BetaCoV/HeB2013                  TAcAATGTTaTTAATAAAGGA---CAC-------TTTGATGGACA-gAttGGCGAAGtAC

SARS_CORONAVIRUS                      acaT-------AgcAATAATaCccaTagCAaAAgGtaAaAaGGcAT-------------T
Severe_acute_respiratory_syndrom      CaGTTTCtATCATTAATAAcaCTGTTTACACAAAaGTtGATGGTgTTGATGTaGAatTgT
SARS_coronavirus_civet007             CTGTTTCCATCATTAATAATGCTGTTTACACAAAGGTAGATGGTATTGATGTGGAGATCT
SARS_coronavirus_GZ50                 CTGTTTCCATCATTAATAATGCTGTTTACACAAAGGTAGATGGTATTGATGTGGAGATCT
SARS_coronavirus_Taiwan_TC1           CTGTTTCCATCATTAATAATGCTGTTTACACAAAGGTAGATGGTATTGATGTGGAGATCT
Bat_coronavirus_(BtCoV/273/2005)      CTGTgTCtATCATcAATAATGCTGTTTACACtAAaGTAGAcGGcgTTGATGTGGAGATCT
BtRf-BetaCoV/HeB2013                  CTGTgTCtATCATcAATAATGCTGTTTACACtAAaGTAGAcGGcgTTGATGTGGAGATCT

SARS_CORONAVIRUS                      TTcAtAcaAAaAaAACACTggtaaTTAccagTGtAcTcactAGCacaaG--TAAatGTAc
Severe_acute_respiratory_syndrom      TTGAAAATAAaACAACAtTaCCTGTTAATGTaGCATTTG--AGCTTTGGGCTAAGCGcAA
SARS_coronavirus_civet007             TTGAAAATAAGACAACACTTCCTGTTAATGTTGCATTTG--AGCTTTGGGCTAAGCGTAA
SARS_coronavirus_GZ50                 TTGAAAATAAGACAACACTTCCTGTTAATGTTGCATTTG--AGCTTTGGGCTAAGCGTAA
SARS_coronavirus_Taiwan_TC1           TTGAAAATAAGACAACACTTCCTGTTAATGTTGCATTTG--AGCTTTGGGCTAAGCGTAA
Bat_coronavirus_(BtCoV/273/2005)      TcGAgAAcAAGACAACACTTCCTGTgAATGTaGCgTTTG--AGCTTTGGGCTAAGCGTAA
BtRf-BetaCoV/HeB2013                  TcGAgAAcAAGACAAtACTTCCTGTgAATGTaGCgTTTG--AGCTTTGGGCTAAaCGcAA

SARS_CORONAVIRUS                      CAT---------------GcTTAAGttcATACTgAgcAggT--GGTGcTGACATCataaC
Severe_acute_respiratory_syndrom      CATTAAACCAGTaCCAGAGgTgAAa---ATACTCAATAATTTGGGTGTgGACATtGCTGC
SARS_coronavirus_civet007             CATTAAACCAGTGCCAGAGATTAAG---ATACTCAATAATTTGGGTGTTGAtATCGCTGC
SARS_coronavirus_GZ50                 CATTAAACCAGTGCCAGAGATTAAG---ATACTCAATAATTTGGGTGTTGAtATCGCTGC
SARS_coronavirus_Taiwan_TC1           CATTAAACCAGTGCCAGAGATTAAG---ATACTCAATAATTTGGGTGTTGAtATCGCTGC
Bat_coronavirus_(BtCoV/273/2005)      CATcAAgCCAGTGCCAGAGATTAAG---ATACTtAAcAATTTGGGTGTcGACATCGCTGC
BtRf-BetaCoV/HeB2013                  CATcAAgCCAGTGCCAGAGATTAAG---ATACTtAAcAATTTGGGTGTcGACATCGCTGC

SARS_CORONAVIRUS                      aAAaggTGactcCTG---tTgtActAGAtAttttgtAGCttgTtTAcCacacgTACAA--
Severe_acute_respiratory_syndrom      TAATACTGTgATCTGGGACTACAAAAGAGAtGCtCCAGCACATaTATC-----TACtATt
SARS_coronavirus_civet007             TAATACTGTAATCTGGGACTACAAAAGAGAAGCCCCAGCACATGTATC-----TACAATA
SARS_coronavirus_GZ50                 TAATACTGTAATCTGGGACTACAAAAGAGAAGCCCCAGCACATGTATC-----TACAATA
SARS_coronavirus_Taiwan_TC1           TAATACTGTAATCTGGGACTACAAAAGAGAAGCCCCAGCACATGTATC-----TACAATA
Bat_coronavirus_(BtCoV/273/2005)      cAATACTGTtATCTGGGACTACAAAAGAGAAGCgCCAGCACATGTcTC-----aACAATA
BtRf-BetaCoV/HeB2013                  cAATACTGTtATCTGGGACTACAAAAGAGAAGCaCCAGCACATGTcTC-----aACAATA

SARS_CORONAVIRUS                      GGTaTCTGaACAccTttCTtAaATTGttcAtAA-------GAAAGTG--TGccCaTgtAC
Severe_acute_respiratory_syndrom      GGTGTtTGttCt-ATGACTGACATaGCCAAGAAACCaACTGAAAcgatTTGTgCac-CAC
SARS_coronavirus_civet007             GGTGTCTGCACA-ATGACTGACATTGCCAAGAAACCTACTGAgAGTGCTTGTTCTT-CAC
SARS_coronavirus_GZ50                 GGTGTCTGCACA-ATGACTGACATTGCCAAGAAACCTACTGAgAGTGCTTGTTCTT-CAC
SARS_coronavirus_Taiwan_TC1           GGTGTCTGCACA-ATGACTGACATTGCCAAGAAACCTACTGAgAGTGCTTGTTCTT-CAC
Bat_coronavirus_(BtCoV/273/2005)      GGTaTCTGCACA-ATGACTGACATTGCCAAGAAACCTACTGAAAGcGCTTGTTCgT-CgC
BtRf-BetaCoV/HeB2013                  GGTaTCTGCACA-ATGACTGACATTGCCAAGAAACCTACTGAAAGcGCTTGTTCgT-CgC

SARS_CORONAVIRUS                      aTAacagCTTcT---------------------------------------ACaCCCtTA
Severe_acute_respiratory_syndrom      TcACTGTCTTtTTTGATGGTAGAGTtGAtGGtCAaGTAGACtTATTTAGAAAtGCCCGTA
SARS_coronavirus_civet007             TTACTGTCTTGTTTGATGGTAGAGTGGAAGGACAGGTAGACCTtTTTAGAAACGCCCGTA
SARS_coronavirus_GZ50                 TTACTGTCTTGTTTGATGGTAGAGTGGAAGGACAGGTAGACCTtTTTAGAAACGCCCGTA
SARS_coronavirus_Taiwan_TC1           TTACTGTCTTGTTTGATGGTAGAGTGGAAGGACAGGTAGACCTtTTTAGAAACGCCCGTA
Bat_coronavirus_(BtCoV/273/2005)      TTACcGTCTTaTTcGATGGTAGAGTtGAAGGACAGGTtGACtTATTcAGAAAtGCaCGTA
BtRf-BetaCoV/HeB2013                  TTACTGTCTTaTTcGATGGTAGAGTtGAAGGACAGGTtGACtTATTcAGAAAtGCaCGTA

SARS_CORONAVIRUS                      AgGGTtgTcTgcTg---------TtgtcCAcAaGTTTtACACaccaCgTtcAAGactCtt
Severe_acute_respiratory_syndrom      ATGGTGTTcTtATtACAGAAGGTagtGTtAAAGGTTTAcaAC----CATCtgtaGGtCCc
SARS_coronavirus_civet007             ATGGTGTTTTAATAACAGAAGGTTCAGTCAAAGGTcTAACAC----CtTCAAAGGGACCA
SARS_coronavirus_GZ50                 ATGGTGTTTTAATAACAGAAGGTTCAGTCAAAGGTcTAACAC----CtTCAAAGGGACCA
SARS_coronavirus_Taiwan_TC1           ATGGTGTTTTAATAACAGAAGGTTCAGTCAAAGGTcTAACAC----CtTCAAAGGGACCA
Bat_coronavirus_(BtCoV/273/2005)      ATGGTGTTTTAATAACgGAAGGTTCAGTCAAgGGTTTAACAC----CATCAAAaGGACCt
BtRf-BetaCoV/HeB2013                  ATGGTGTTTTAATAACgGAAGGTTCAGTCAAgGGTTTAACAC----CATCAAAaGGACCt

SARS_CORONAVIRUS                      ttgCAAG--AaTcTaAATtGg--CAtgTT-------GAAaCAagtAActCAttGTTTctC
Severe_acute_respiratory_syndrom      aaACAAGCTAGTcTtAATGGAGTCACATTAATTGGAGAAgCcGTAAAAACACAGTTcAAt
SARS_coronavirus_civet007             GCACAAGCTAGcGTCAATGGAGTCACATTAATTGGAGAATCAGTAAAAACACAGTTTAAC
SARS_coronavirus_GZ50                 GCACAAGCTAGcGTCAATGGAGTCACATTAATTGGAGAATCAGTAAAAACACAGTTTAAC
SARS_coronavirus_Taiwan_TC1           GCACAAGCTAGcGTCAATGGAGTCACATTAATTGGAGAATCAGTAAAAACACAGTTTAAC
Bat_coronavirus_(BtCoV/273/2005)      GtgCAAGCaAGTGTCAATGGAGTCACATTgATTGGAGAATCAGTAAAAACACAGTTTAAt
BtRf-BetaCoV/HeB2013                  GtgCAAGCaAGTGTCAATGGAGTCACATTgATTGGAGAATCAGTAAAAACACAGTTTAAt

SARS_CORONAVIRUS                      TA-----------------aCATcAcCtAAC--TcaCCTa----CTgtcTTA--------
Severe_acute_respiratory_syndrom      TAtTaTAAGAAAGTtGAtGGtgTTgTCCAACAATTaCCTGAAACtTACTTTACTCAGAGt
SARS_coronavirus_civet007             TACTTTAAGAAAGTAGACGGCATTATtCAACAgTTGCCTGAAACCTACTTTACTCAGAGC
SARS_coronavirus_GZ50                 TACTTTAAGAAAGTAGACGGCATTATtCAACAgTTGCCTGAAACCTACTTTACTCAGAGC
SARS_coronavirus_Taiwan_TC1           TACTTTAAGAAAGTAGACGGCATTATtCAACAgTTGCCTGAAACCTACTTTACTCAGAGC
Bat_coronavirus_(BtCoV/273/2005)      TAtTTcAAGAAAGTAGAtGGCATcATCCAACAATTGCCTGAAACCTACTTTACaCAGAGt
BtRf-BetaCoV/HeB2013                  TAtTTcAAGAAAGTAGAtGGCATcATCCAACAATTGCCTGAAACCTACTTTACaCAGAGt

SARS_CORONAVIRUS                      ------TTAcAGtAggcTAAGataAGtgCACAAAaGttAgCaGctTcaCcaGccCTtGCT
Severe_acute_respiratory_syndrom      AGAaAtTTAcAaGAaTTTAAaCCCAGgagtCAAATGGAAAtTGAtTTCtTaGAatTaGCT
SARS_coronavirus_civet007             AGAGACTTAGAGGATTTTAAGCCCAGATCACAAATGGAAACTGACTTtCTCGAGCTCGCT
SARS_coronavirus_GZ50                 AGAGACTTAGAGGATTTTAAGCCCAGATCACAAATGGAAACTGACTTtCTCGAGCTCGCT
SARS_coronavirus_Taiwan_TC1           AGAGACTTAGAGGATTTTAAGCCCAGATCACAAATGGAAACTGACTTtCTCGAGCTCGCT
Bat_coronavirus_(BtCoV/273/2005)      AGAGACTTAGAGGATTTTAAGCCCAGATCACAAATGGAAACgGACTTCCTCGAGCTCGCa
BtRf-BetaCoV/HeB2013                  AGAGACTTAGAGGATTTTAAGCCCAGATCACAAATGGAAACgGACTTCCTCGAGCTCGCa

SARS_CORONAVIRUS                      cTGtA-----------------ATAAGC---------ATcttgTaGAgCAggTgGaTT--
Severe_acute_respiratory_syndrom      ATGGATGAATTCATtgAaCGgTATAAatTAGAaGGCTATGCCTTCGAACAtATCGTTTAT
SARS_coronavirus_civet007             ATGGATGAATTCATACAGCGATATAAGCTcGAGGGCTATGCCTTCGAACACATCGTTTAT
SARS_coronavirus_GZ50                 ATGGATGAATTCATACAGCGATATAAGCTcGAGGGCTATGCCTTCGAACACATCGTTTAT
SARS_coronavirus_Taiwan_TC1           ATGGATGAATTCATACAGCGATATAAGCTcGAGGGCTATGCCTTCGAACACATCGTTTAT
Bat_coronavirus_(BtCoV/273/2005)      ATGGATGAATTCATACAGCGATAcAAGCTAGAaGGCTATGCCTTCGAgCAtATCGTTTAT
BtRf-BetaCoV/HeB2013                  ATGGATGAATTCATACAGCGATAcAAGCTAGAGGGCTATGCCTTCGAgCAtATCGTTTAT

SARS_CORONAVIRUS                      --AaAcTTCAa-------------------CTctATTT----------------------
Severe_acute_respiratory_syndrom      GGAGATTTtAGTCATaGtCAgtTAGGtGGTtTaCATcTAcTGATtGGaCTAGCtAAaCGt
SARS_coronavirus_civet007             GGAGATTTCAGTCATGGACAACTtGGCGGTCTTCATTTAATGATAGGCtTAGCCAAGCGC
SARS_coronavirus_GZ50                 GGAGATTTCAGTCATGGACAACTtGGCGGTCTTCATTTAATGATAGGCtTAGCCAAGCGC
SARS_coronavirus_Taiwan_TC1           GGAGATTTCAGTCATGGACAACTtGGCGGTCTTCATTTAATGATAGGCtTAGCCAAGCGC
Bat_coronavirus_(BtCoV/273/2005)      GGAGATTTCAGTCATGGACAACTAGGCGGaCTTCATcTAATGATAGGtCTtGCCAAGaGa
BtRf-BetaCoV/HeB2013                  GGAGATTTCAGTCATGGACAACTAGGCGGaCTTCATTTAATGATAGGtCTtGCCAAGaaa

SARS_CORONAVIRUS                      --------------------gTTgGAG-----------TgTtaACAatgCAGTGgcAAg-
Severe_acute_respiratory_syndrom      TttaAgGAaTCACCttTTgAATTAGAaGATTTTATtCCTATGGACAGtACAGTtAAAAAc
SARS_coronavirus_civet007             TCACAAGATTCACCACTTAAATTAGAGGATTTTATCCCTATGGACAGCACAGTGAAAAAT
SARS_coronavirus_GZ50                 TCACAAGATTCACCACTTAAATTAGAGGATTTTATCCCTATGGACAGCACAGTGAAAAAT
SARS_coronavirus_Taiwan_TC1           TCACAAGATTCACCACTTAAATTAGAGGATTTTATCCCTATGGACAGCACAGTGAAAAAT
Bat_coronavirus_(BtCoV/273/2005)      TCACAAGAcTCACCgtTaAAATTAGAGGATTTTATCCCTATGGACAGCACAGTGAAgAAT
BtRf-BetaCoV/HeB2013                  TCACAAGAcTCACCgtTaAAATTAGAGGATTTTATCCCTATGGAtAGtACgGTGAAgAAT

SARS_CORONAVIRUS                      ------ATAACAGtT------ACAGGTTCATCtAAgTGTGTGTGTTCTGTTATTGATtTa
Severe_acute_respiratory_syndrom      TAtTTCATAACAGATGCGCAAACAGGTTCATCtAAgTGTGTGTGTTCTGTTATTGATtTa
SARS_coronavirus_civet007             TACTTCATAACAGATGCGCAAACAGGTTCATCAAAATGTGTGTGTTCTGTgATTGATCTT
SARS_coronavirus_GZ50                 TACTTCATAACAGATGCGCAAACAGGTTCATCAAAATGTGTGTGTTCTGTgATTGATCTT
SARS_coronavirus_Taiwan_TC1           TACTTCATAACAGATGCGCAAACAGGTTCATCAAAATGTGTGTGTTCTGTgATTGATCTT
Bat_coronavirus_(BtCoV/273/2005)      TAtTTCATAACAGATGCtCAAACAGGTTCgTCAAAATGTGTcTGcTCTGTTATTGATCTT
BtRf-BetaCoV/HeB2013                  TAtTTCATAACAGATGCtCAAACAGGTTCgTCAAAATGTGTcTGcTCTGTTATTGATCTT

SARS_CORONAVIRUS                      TTACTTGATGAtTTTGTtGAAATAATAAAaTCcCAAGATTTaTCtGTAGTTTCtAAgGTt
Severe_acute_respiratory_syndrom      TTACTTGATGAtTTTGTtGAAATAATAAAaTCcCAAGATTTaTCtGTAGTTTCtAAgGTt
SARS_coronavirus_civet007             TTACTTGATGACTTTGTCGAgATAATAAAGTCACAAGATTTGTCAGTgaTTTCAAAAGTG
SARS_coronavirus_GZ50                 TTACTTGATGACTTTGTCGAgATAATAAAGTCACAAGATTTGTCAGTgaTTTCAAAAGTG
SARS_coronavirus_Taiwan_TC1           TTACTTGATGACTTTGTCGAgATAATAAAGTCACAAGATTTGTCAGTgaTTTCAAAAGTG
Bat_coronavirus_(BtCoV/273/2005)      TTACTTGATGACTTTGTaGAAATAATAAAGTCACAAGATcTtTCAGTAGTTTCAAAAGTG
BtRf-BetaCoV/HeB2013                  TTACTTGATGACTTTGTaGAAATAATAAAGTCACAAGATcTtTCAGTAGTTTCAAAAGTG

SARS_CORONAVIRUS                      GTCAAAGTgACtATTGACTATaCaGAAATTTCATTTATGCTTTGGTGTAAAGATGGcCAT
Severe_acute_respiratory_syndrom      GTCAAAGTgACtATTGACTATaCaGAAATTTCATTTATGCTTTGGTGTAAAGATGGcCAT
SARS_coronavirus_civet007             GTCAAgGTtACAATTGACTATGCTGAAATTTCATTcATGCTTTGGTGTAAgGATGGACAT
SARS_coronavirus_GZ50                 GTCAAgGTtACAATTGACTATGCTGAAATTTCATTcATGCTTTGGTGTAAgGATGGACAT
SARS_coronavirus_Taiwan_TC1           GTCAAgGTtACAATTGACTATGCTGAAATTTCATTcATGCTTTGGTGTAAgGATGGACAT
Bat_coronavirus_(BtCoV/273/2005)      GTCAAAGTcACAATaGACTATGCTGAAATaTCATTTATGCTTTGGTGTAAAGATGGACAT
BtRf-BetaCoV/HeB2013                  GTCAAAGTcACAATaGACTATGCTGAAATaTCATTTATGCTTTGGTGTAAAGATGGACAT

SARS_CORONAVIRUS                      GTaGAAACaTTTTACCCAAAATTACAAtCtAGTCAAGCGTGGCAACCGGGTGTTGCtATG
Severe_acute_respiratory_syndrom      GTaGAAACaTTTTACCCAAAATTACAAtCtAGTCAAGCGTGGCAACCGGGTGTTGCtATG
SARS_coronavirus_civet007             GTTGAAACCTTcTACCCAAAAcTACAAGCAAGTCAAGCGTGGCAACCaGGTGTTGCGATG
SARS_coronavirus_GZ50                 GTTGAAACCTTcTACCCAAAAcTACAAGCAAGTCAAGCGTGGCAACCaGGTGTTGCGATG
SARS_coronavirus_Taiwan_TC1           GTTGAAACCTTcTACCCAAAAcTACAAGCAAGTCAAGCGTGGCAACCaGGTGTTGCGATG
Bat_coronavirus_(BtCoV/273/2005)      GTTGAAACCTTTTACCCAAAATTACAAGCgAGTCAgGCaTGGCAACCGGGcGTTGCaATG
BtRf-BetaCoV/HeB2013                  GTTGAAACCTTTTACCCAAAATTACAAGCgAGTCAgGCaTGGCAACCGGGcGTTGCaATG

SARS_CORONAVIRUS                      CCTAAtcTtTACAAaATGCAAAGAATGCTatTaGAAAAGTGTGACCTTCAaAATTATGGT
Severe_acute_respiratory_syndrom      CCTAAtcTtTACAAaATGCAAAGAATGCTatTaGAAAAGTGTGACCTTCAaAATTATGGT
SARS_coronavirus_civet007             CCTAACTTGTACAAGATGCAAAGAATGCTTCTTGAAAAGTGTGACCTTCAGAATTATGGT
SARS_coronavirus_GZ50                 CCTAACTTGTACAAGATGCAAAGAATGCTTCTTGAAAAGTGTGACCTTCAGAATTATGGT
SARS_coronavirus_Taiwan_TC1           CCTAACTTGTACAAGATGCAAAGAATGCTTCTTGAAAAGTGTGACCTTCAGAATTATGGT
Bat_coronavirus_(BtCoV/273/2005)      CCcAACTTGTAtAAGATGCAAAGAATGCTTCTTGAAAAaTGTGACCTTCAGAATTATGGT
BtRf-BetaCoV/HeB2013                  CCcAACTTGTAtAAGATGCAAAGAATGCTTCTTGAAAAaTGTGACCTTCAGAATTATGGT

SARS_CORONAVIRUS                      GAtAgTGCaacatTACCtAAAGGcATAATGATGAATGTCGCAAAATATACTCAACTGTGT
Severe_acute_respiratory_syndrom      GAtAgTGCaacatTACCtAAAGGcATAATGATGAATGTCGCAAAATATACTCAACTGTGT
SARS_coronavirus_civet007             GAAAATGCTGTTATACCAAAAGGAATAATGATGAATGTCGCAAAgTATACTCAACTGTGT
SARS_coronavirus_GZ50                 GAAAATGCTGTTATACCAAAAGGAATAATGATGAATGTCGCAAAgTATACTCAACTGTGT
SARS_coronavirus_Taiwan_TC1           GAAAATGCTGTTATACCAAAAGGAATAATGATGAATGTCGCAAAgTATACTCAACTGTGT
Bat_coronavirus_(BtCoV/273/2005)      GAAAAcGCTGTTATACCAAAAGGAATAATGATGAATGTCGCAAAATATACcCAACTGTGT
BtRf-BetaCoV/HeB2013                  GAAAAcGCTGTTATACCAAAAGGAATAATGATGAATGTCGCAAAATATACcCAACTGTGT

SARS_CORONAVIRUS                      CAATAtTTAAAcACAtTaACATTAGCTGTACCCTAtAAtATGAGAGTTATACAtTTTGGT
Severe_acute_respiratory_syndrom      CAATAtTTAAAcACAtTaACATTAGCTGTACCCTAtAAtATGAGAGTTATACAtTTTGGT
SARS_coronavirus_civet007             CAATACTTAAATACACTTACtTTAGCTGTACCCTACAACATGAGAGTTATtCACTTTGGT
SARS_coronavirus_GZ50                 CAATACTTAAATACACTTACtTTAGCTGTACCCTACAACATGAGAGTTATtCACTTTGGT
SARS_coronavirus_Taiwan_TC1           CAATACTTAAATACACTTACtTTAGCTGTACCCTACAACATGAGAGTTATtCACTTTGGT
Bat_coronavirus_(BtCoV/273/2005)      CAATACTTAAAcACACTTACATTAGCTGTgCCtTACAACATGAGAGTcATACACTTTGGc
BtRf-BetaCoV/HeB2013                  CAATACTTAAATACACTTACATTAGCTGTgCCtTACAACATGAGAGTcATACACTTTGGc

SARS_CORONAVIRUS                      GCTGGtTCTGATAAAGGAGTTGCACCAGGTACAGCTGTttTaAGACAGTGGTTGCCtACg
Severe_acute_respiratory_syndrom      GCTGGtTCTGATAAAGGAGTTGCACCAGGTACAGCTGTttTaAGACAGTGGTTGCCtACg
SARS_coronavirus_civet007             GCTGGCTCTGATAAAGGAGTTGCACCAGGTACAGCTGTaCTCAGACAaTGGTTGCCAACT
SARS_coronavirus_GZ50                 GCTGGCTCTGATAAAGGAGTTGCACCAGGTACAGCTGTGCTCAGACAaTGGTTGCCAACT
SARS_coronavirus_Taiwan_TC1           GCTGGCTCTGATAAAGGAGTTGCACCAGGTACAGCTGTGCTCAGACAaTGGTTGCCAACT
Bat_coronavirus_(BtCoV/273/2005)      GCTGGCTCTGAcAAAGGAGTgGCgCCtGGTACAGCTGTGCTCAGACAGTGGTTGCCAAtT
BtRf-BetaCoV/HeB2013                  GCTGGCTCTGAcAAAGGAGTgGCgCCtGGTACAGCTGTGCTCAGACAGTGGTTGCCAAtT

SARS_CORONAVIRUS                      GGtACgCTgCTTGTCGATTCAGATCTTAATGACTTTGTCTCTGAtGCAGATTCaACTTTg
Severe_acute_respiratory_syndrom      GGtACgCTgCTTGTCGATTCAGATCTTAATGACTTTGTCTCTGAtGCAGATTCaACTTTg
SARS_coronavirus_civet007             GGCACACTACTTGTCGATTCAGATCTTAATGACTTcGTCTCcGACGCAGATTCTACTTTA
SARS_coronavirus_GZ50                 GGCACACTACTTGTCGATTCAGATCTTAATGACTTcGTCTCcGACGCAGATTCTACTTTA
SARS_coronavirus_Taiwan_TC1           GGCACACTACTTGTCGATTCAGATCTTAATGACTTcGTCTCcGACGCAGATTCTACTTTA
Bat_coronavirus_(BtCoV/273/2005)      GGCACACTACTTGTCGATTCtGAcCTTAATGAtTTTGTCTCTGACGCtGATTCTACaTTA
BtRf-BetaCoV/HeB2013                  GGCACACTACTTGTCGATTCtGAcCTTAATGAtTTTGTCTCTGACGCtGATTCTACaTTA

SARS_CORONAVIRUS                      ATTGGtGAtTGTGCAACTGTACATACAGCTAATAAATGGGATCTCATTATTAGtGATATG
Severe_acute_respiratory_syndrom      ATTGGtGAtTGTGCAACTGTACATACAGCTAATAAATGGGATCTCATTATTAGtGATATG
SARS_coronavirus_civet007             ATTGGAGACTGTGCAACaGTACATACgGCTAATAAATGGGAcCTtATTATTAGCGATATG
SARS_coronavirus_GZ50                 ATTGGAGACTGTGCAACaGTACATACgGCTAATAAATGGGAcCTtATTATTAGCGATATG
SARS_coronavirus_Taiwan_TC1           ATTGGAGACTGTGCAACaGTACATACgGCTAATAAATGGGAcCTtATTATTAGCGATATG
Bat_coronavirus_(BtCoV/273/2005)      ATTGGAGACTGTGCtACTGTACATACAGCTAATAAATGGGATCTCATTgTTAGCGATATG
BtRf-BetaCoV/HeB2013                  ATTGGAGACTGTGCtACTGTACATACAGCTAAcAAATGGGATCTCATTgTTAGCGATATG

SARS_CORONAVIRUS                      TAcGACCCTAAGACTAAAaATGTtACAAAAGAaAATGACTCTAAAGAgGGtTTTTTCACT
Severe_acute_respiratory_syndrom      TAcGACCCTAAGACTAAAaATGTtACAAAAGAaAATGACTCTAAAGAgGGtTTTTTCACT
SARS_coronavirus_civet007             TATGACCCTAgGACcAAACATGTGACAAAAGAGAATGACTCTAAAGAAGGGTTTTTCACT
SARS_coronavirus_GZ50                 TATGACCCTAgGACcAAACATGTGACAAAAGAGAATGACTCTAAAGAAGGGTTTTTCACT
SARS_coronavirus_Taiwan_TC1           TATGACCCTAgGACcAAACATGTGACAAAAGAGAATGACTCTAAAGAAGGGTTTTTCACT
Bat_coronavirus_(BtCoV/273/2005)      TATGACCCTAAaACTAAgCATGTGACAgAgGAGAATGACTCaAAAGAAGGGTTTTTCACc
BtRf-BetaCoV/HeB2013                  TATGACCCTAAaACTAAACATGTGACAgAgGAGAATGACTCaAAAGAAGGGTTTTTCACc

SARS_CORONAVIRUS                      TAcaTtTGTGGgT----------------------------TTtTAcGGtctTAAtGAcA
Severe_acute_respiratory_syndrom      TAcaTtTGTGGgTTTATAcAACAAAAgCTAGCtCTtGGAGGTTCcgTGGCTaTAAAGATA
SARS_coronavirus_civet007             TATCTGTGTGGATTTATAAAgCAAAAACTAGCCCTGGGtGGTTCTATaGCTGTAAAGATA
SARS_coronavirus_GZ50                 TATCTGTGTGGATTTATAAAgCAAAAACTAGCCCTGGGtGGTTCTATaGCTGTAAAGATA
SARS_coronavirus_Taiwan_TC1           TATCTGTGTGGATTTATAAAgCAAAAACTAGCCCTGGGtGGTTCTATaGCTGTAAAGATA
Bat_coronavirus_(BtCoV/273/2005)      TATCTGTGTGGATTTATAAAACAAAAACTAGCCCTGGGAGGTTCcgTGGCTGTAAAGATA
BtRf-BetaCoV/HeB2013                  TATCTGTGTGGATTTATAAAACAAAAACTAGCCCTGGGAGGTTCcgTGGCTGTAAAGATA

SARS_CORONAVIRUS                      A-----CcTTCTTGaAATaCT---------------------------------------
Severe_acute_respiratory_syndrom      ACAGAaCATTCTTGGAATGCTGAtCTTTAtAAGCTcATGGGACAcTTCgCATGGTGGACA
SARS_coronavirus_civet007             ACAGAGCATTCTTGGAATGCTGACCTTTACAAGCTTATGGGcCATTTCTCATGGTGGACA
SARS_coronavirus_GZ50                 ACAGAGCATTCTTGGAATGCTGACCTTTACAAGCTTATGGGcCATTTCTCATGGTGGACA
SARS_coronavirus_Taiwan_TC1           ACAGAGCATTCTTGGAATGCTGACCTTTACAAGCTTATGGGcCATTTCTCATGGTGGACA
Bat_coronavirus_(BtCoV/273/2005)      ACAGAGCATTCTTGGAATGCTGAtCTcTACAAGCTTATGGGAtATTTCTCATGGTGGACA
BtRf-BetaCoV/HeB2013                  ACAGAGCATTCTTGGAATGCTGAtCTcTACAAGCTTATGGGAtATTTCTCATGGTGGACA

SARS_CORONAVIRUS                      -------ccAaAAAgagAAAgtCAaCATCAat-------------ATTGttGgTgACTtT
Severe_acute_respiratory_syndrom      GCcTTTGTTACtAATGTgAATGCgTCATCATCtGAAGCATTTTTAATTGGAtgTAAtTAT
SARS_coronavirus_civet007             GCTTTTGTTACAAATGTAAATGCATCATCATCGGAAGCATTTTTAATTGGgGCTAACTAT
SARS_coronavirus_GZ50                 GCTTTTGTTACAAATGTAAATGCATCATCATCGGAAGCATTTTTAATTGGgGCTAACTAT
SARS_coronavirus_Taiwan_TC1           GCTTTTGTTACAAATGTAAATGCATCATCATCGGAAGCATTTTTAATTGGgGCTAACTAT
Bat_coronavirus_(BtCoV/273/2005)      GCTTTTGTcACAAATGTcAATGCgTCATCcTCtGAgGCATTTTTgATTGGAGtTAAtTAc
BtRf-BetaCoV/HeB2013                  GCTTTTGTcACAAATGTcAATGCgTCATCcTCtGAgGCATTTTTAATTGGAGtTAAtTAc

SARS_CORONAVIRUS                      ------AAaCttAAtGAAgAgATcG---------CCAT-tATttTggCatCtTTTTCTG-
Severe_acute_respiratory_syndrom      CTTGGCAAaCCacgcGAACAAATaGATGGtTATgtCATGCATGCaAAtTACATaTTtTGG
SARS_coronavirus_civet007             CTTGGCAAGCtGAAGGAACAAATTGATGGCTATACCATGCATGCTAACTACATTTTCTGG
SARS_coronavirus_GZ50                 CTTGGCAAGCCGAAGGAACAAATTGATGGCTATACCATGCATGCTAACTACATTTTCTGG
SARS_coronavirus_Taiwan_TC1           CTTGGCAAGCCGAAGGAACAAATTGATGGCTATACCATGCATGCTAACTACATTTTCTGG
Bat_coronavirus_(BtCoV/273/2005)      CTTGGtAAGCCGAAaGAgCAAATTGATGGCTATACCATGCATGCTAACTACgTcTTCTGG
BtRf-BetaCoV/HeB2013                  CTTGGtAAGCCGAAaGAgCAAATTGATGGCTATACCATGCATGCTAACTACgTcTTCTGG

SARS_CORONAVIRUS                      ------------CtTccaCAagTGctTTtgT-----------------------------
Severe_acute_respiratory_syndrom      AGGAAtACAAATCCaATtCAGTTGTCTTCCTATTCttTATTTGACATGAGtAAATTTCCc
SARS_coronavirus_civet007             AGGAACACAAATCCTATCCAGTTGTCTTCCTATTCACTcTTTGACATGAGCAAATTTCCT
SARS_coronavirus_GZ50                 AGGAACACAAATCCTATCCAGTTGTCTTCCTATTCACTcTTTGACATGAGCAAATTTCCT
SARS_coronavirus_Taiwan_TC1           AGGAACACAAATCCTATCCAGTTGTCTTCCTATTCACTcTTTGACATGAGCAAATTTCCT
Bat_coronavirus_(BtCoV/273/2005)      AGGAAtACAAATCCTATtCAaTTGTCTTCtTATTCAtTATTTGACATGAGCAAATTcCCT
BtRf-BetaCoV/HeB2013                  AGGAAtACAAATCCTATtCAaTTGTCTTCtTATTCAtTATTTGACATGAGCAAATTcCCT

SARS_CORONAVIRUS                      -----------GGaAACTG-TGaAAgGTtT-----GGAttAT-AAAgCAtTcAaAcaAaT
Severe_acute_respiratory_syndrom      CTTAAATTAAGGGGtACTGCTGTtATGTCTtTAAAaGAaggTCAAATCAATGATATGATT
SARS_coronavirus_civet007             CTTAAATTAAGaGGAACTGCTGTAATGTCTCTtAAGGAGAATCAAATCAATGATATGATT
SARS_coronavirus_GZ50                 CTTAAATTAAGaGGAACTGCTGTAATGTCTCTtAAGGAGAATCAAATCAATGATATGATT
SARS_coronavirus_Taiwan_TC1           CTTAAATTAAGaGGAACTGCTGTAATGTCTCTtAAGGAGAATCAAATCAATGATATGATT
Bat_coronavirus_(BtCoV/273/2005)      CTcAAATTAAGGGGgACTGCTGTtATGTCTtTAAAaGAGAATCAAATCAATGAcATGATT
BtRf-BetaCoV/HeB2013                  CTcAAATTAAGGGGgACTGCTGTtATGTCTtTAAAaGAGAATCAAATCAATGAcATGATT

SARS_CORONAVIRUS                      TgTTgaaTcCTGtGgtAAtttTAaAgTTAcaAaagGAaAAgctAAaAaAGgTGcc-----
Severe_acute_respiratory_syndrom      TtaTCTCTTCTt-agtAAAGGTAGACTTATaATTAGAGAAAACAACAGAGTTGTtaTTTC
SARS_coronavirus_civet007             TATTCTCTTCTG-GAAAAAGGTAGgCTTATCATTAGAGAAAACAACAGAGTTGTGGTTTC
SARS_coronavirus_GZ50                 TATTCTCTTCTG-GAAAAAGGTAGgCTTATCATTAGAGAAAACAACAGAGTTGTGGTTTC
SARS_coronavirus_Taiwan_TC1           TATTCTCTTCTG-GAAAAAGGTAGgCTTATCATTAGAGAAAACAACAGAGTTGTGGTTTC
Bat_coronavirus_(BtCoV/273/2005)      TATTCcCTgtTG-GAAAAgGGTAGACTTATCATTAGAGAAAACAACAcAGTTGTaGTcTC
BtRf-BetaCoV/HeB2013                  TATTCcCTgtTG-GAAAAgGGTAGACTTATCATTAGAGAAAACAACAcAGTTGTaGTcTC

SARS_CORONAVIRUS                      ---TGgaATatTgGTgAACAg--AAAtcAAtAcTGagTccTcT----TTATgcaTT----
Severe_acute_respiratory_syndrom      tAGTGATgTTCTTGTTAACAACTAAACGAACAATGTTTgTTTT----TctTgTtTTAtTg
SARS_coronavirus_civet007             AAGTGATATTCTTGTTAACAACTAAACGAAC-ATGTTTATTTTCTTATTATTTCTTACTC
SARS_coronavirus_GZ50                 AAGTGATATTCTTGTTAACAACTAAACGAAC-ATGTTTATTTTCTTATTATTTCTTACTC
SARS_coronavirus_Taiwan_TC1           AAGTGATATTCTTGTTAACAACTAAACGAAC-ATGTTTATTTTCTTATTATTTCTTACTC
Bat_coronavirus_(BtCoV/273/2005)      AAGTGATgTTCTTGTTAAtcAtTAAACGAAC-ATGaaaATT------TTAaTTtTTgCTt
BtRf-BetaCoV/HeB2013                  AAGTGATgTTCTTGTTAAtcAtTAAACGAAC-ATGaaaATT------TTAaTTtTTgCTt

SARS_CORONAVIRUS                      --------------------------TGCAtCA---------GAgGcTGcTCgtGtT---
Severe_acute_respiratory_syndrom      cCACTAGT--------CtCTAgtCAGTGtgttA-------------ATcTTacAaCc---
SARS_coronavirus_civet007             TCACTAGTGGTAGTGACCtTgACCgGTGCACCA----CTTTTGATGATGTTCAAGCT---
SARS_coronavirus_GZ50                 TCACTAGTGGTAGTGACCtTgACCgGTGCACCA----CTTTTGATGATGTTCAAGCT---
SARS_coronavirus_Taiwan_TC1           TCACTAGTGGTAGTGACCtTgACCgGTGCACCA----CTTTTGATGATGTTCAAGCT---
Bat_coronavirus_(BtCoV/273/2005)      TCc-------TAGTtACCCTAgttAaaGCACaAGAAGgTTgTGgcG-TGaTCAAcCTCAg
BtRf-BetaCoV/HeB2013                  TCc-------TAGTtACCCTAgttAaaGCACaAGAAGgTTgTGgcG-TGaTCAAcCTCAa

SARS_CORONAVIRUS                      ------------gTACgaTCAAttTtC---------------------------------
Severe_acute_respiratory_syndrom      ---AgAACtcAATTACcCcCtgCATACactaaTTCtTtcAcacGtGGtGTTTAtTAcCCT
SARS_coronavirus_civet007             -------CCTAATTACACTCAACATAC-----TTCATCtAtGAGGGGGGTTTACTATCCT
SARS_coronavirus_GZ50                 -------CCTAATTACACTCAACATAC-----TTCATCtAtGAGGGGGGTTTACTATCCT
SARS_coronavirus_Taiwan_TC1           -------CCTAATTACACTCAACATAC-----TTCATCtAtGAGGGGGGTTTACTATCCT
Bat_coronavirus_(BtCoV/273/2005)      GACACAACCTAAaTtaACaCAAgtctC-----cTCcTCgcgtAGaGGtGTTTAtTATaaT
BtRf-BetaCoV/HeB2013                  GACACAACCTAtaTtaACaCAAgtctC-----cTCcTCgcgtAGaGGtGTTTAtTATaaT

SARS_CORONAVIRUS                      ---------------TCccgCACTCTTgAaactgCTCAaaA-------------TTCTgT
Severe_acute_respiratory_syndrom      GAcaAAgTTTTCAGATCctcagtTtTaCATTcAACTCAGGAcTTgTTCtTACCtTTCTtT
SARS_coronavirus_civet007             GATGAAATTTTtAGATCAGACACTCTTtATTTAACTCAGGATTTATTtCTtCCATTtTAT
SARS_coronavirus_GZ50                 GATGAAATTTTtAGATtAGACACTCTTtATTTAACTCAGGATTTATTtCTtCCATTtTAT
SARS_coronavirus_Taiwan_TC1           GATGAAATTTTtAGATCAGACACTCTTtATTTAACTCAGGATTTATTtCTtCCATTtTAT
Bat_coronavirus_(BtCoV/273/2005)      GATGAtATaTTCcGtTCtGAtgtTtTaCATcTcACgCAGGATTatTTCtTACCATTCcAT
BtRf-BetaCoV/HeB2013                  GATGAtATaTTCcGtTCtGAtgtTtTaCATcTcACgCAGGATTatTTCtTACCATTCcAT

SARS_CORONAVIRUS                      gCgtgTtTTACAGaaggCCgc------------------------------------TaT
Severe_acute_respiratory_syndrom      TCcAATGTTACttGGTTCCATgCTATacATgTctctgggaccAAtggTacTaAgAgGTTT
SARS_coronavirus_civet007             TCTAATGTTACAGGGTTtCATACTATTAA---------------------TCATACGTTT
SARS_coronavirus_GZ50                 TCTAATGTTACAGGGTTtCATACTATTAA---------------------TCATACGTTT
SARS_coronavirus_Taiwan_TC1           TCTAATGTTACAGGGTTtCATACTATTAA---------------------TCATACGTTT
Bat_coronavirus_(BtCoV/273/2005)      TCTAAccTaACAcaGTaCttTtCTcTTAATATTGAGTCAGATAAAATTGTTtA---tTTT
BtRf-BetaCoV/HeB2013                  TCTAAccTaACAcaGTaCttTtCTcTTAATATTGAGTCAGATAAAATTGTTtA---tTTT

SARS_CORONAVIRUS                      aACAAtaCTa--------------GATGGaATTTcacagtaTTcaCTGagACtcAttgAT
Severe_acute_respiratory_syndrom      GAtAACCCTGTCcTACCATTTAAtGATGGTgTTTA-----TTTTGCTtCCACtGAGAAgT
SARS_coronavirus_civet007             GACAACCCTGTCATACCtTTTAAGGATGGTATTTA-----TTTTGCTGCCACAGAGAAAT
SARS_coronavirus_GZ50                 GACAACCCTGTCATACCtTTTAAGGATGGTATTTA-----TTTTGCTGCCACAGAGAAAT
SARS_coronavirus_Taiwan_TC1           GgCAACCCTGTCATACCtTTTAAGGATGGTATTTA-----TTTTGCTGCCACAGAGAAAT
Bat_coronavirus_(BtCoV/273/2005)      GACAAtCCcaTatTgaaATTTggtGAcGGTgTTTA-----cTTcGCaGCCACcGAaAAgT
BtRf-BetaCoV/HeB2013                  GACAAtCCcaTatTgaaATTTggtGAcGGTgTTTA-----cTTcGCaGCCACcGAaAAgT

SARS_CORONAVIRUS                      gctATGaTGTtCacatCTGa---TTTGG--CTACTA-------------ACAaTC--Tag
Severe_acute_respiratory_syndrom      CtAAcaTaaTAaGAGGCTGGaTTTTTGGTaCTACTtTagAttcgAAGACcCAGTCccTac
SARS_coronavirus_civet007             CAAATGTTGTcCGtGGtTGGGTTTTTGGTTCTACcATGAACAACAAGtCACAGTCgGTGA
SARS_coronavirus_GZ50                 CAAATGTTGTcCGtGGtTGGGTTTTTGGTTCTACcATGAACAACAAGtCACAGTCgGTGA
SARS_coronavirus_Taiwan_TC1           CAAATGTTGTcCGtGGtTGGGTTTTTGGTTCTACcATGAACAACAAGtCACAGTCgGTGA
Bat_coronavirus_(BtCoV/273/2005)      CtAATGTaaTAaGAGGCTGGGTgTTTGGTTCcACTtTtgACAACAccACtCAGTCtGctA
BtRf-BetaCoV/HeB2013                  CtAATGTaaTAaGAGGCTGGGTgTTTGGTTCcACTtTtgACAACAccACtCAGTCtGctA

SARS_CORONAVIRUS                      TTgTaATggcCtAcatTACaggTGgTGTTgTtCag----tTgACTTcGcAgTGgcTAACt
Severe_acute_respiratory_syndrom      TTATTgTTAAtAAcgCTACTAATGTTGTTATtaaAGtcTGTgAaTTTcAATTtTGTAAt-
SARS_coronavirus_civet007             TTATTATTAACAATTCTACTAATGTTGTTATACGAGCATGTAACTTTGAATTGTGTgAC-
SARS_coronavirus_GZ50                 TTATTATTAACAATTCTACTAATGTTGTTATACGAGCATGTAACTTTGAATTGTGTgAC-
SARS_coronavirus_Taiwan_TC1           TTATTATTAACAATTCTACTAATGTTGTTATACGAGCATGTAACTTTGAATTGTGTgAC-
Bat_coronavirus_(BtCoV/273/2005)      TTATagTcAAtAATTCcACacAcaTTaTTATACGtGtgTGctAtTTTaAccTcTGTAAa-
BtRf-BetaCoV/HeB2013                  TTATagTcAAtAATTCcACacAcaTTaTTATACGtGtgTGctAtTTTaAccTcTGTAAa-

SARS_CORONAVIRUS                      AACatCTTtggcaCTGTTTaT----gAA---------------------aaACtCAaACc
Severe_acute_respiratory_syndrom      gAtCCaTTtTTgGgTGTTTaT----tAcCaCAaaaacaacaaaagtTGGaTggAaAGtgA
SARS_coronavirus_civet007             AACCCtTTCTTTGtTGTTTCT----AAACCCA--------------TGGGTACACAGACA
SARS_coronavirus_GZ50                 AACCCtTTCTTTGCTGTTTCT----AAACCCA--------------TGGGTACACAGACA
SARS_coronavirus_Taiwan_TC1           AACCCtTTCTTTGCTGTTTCT----AAACCCA--------------TGGGTACACAGACA
Bat_coronavirus_(BtCoV/273/2005)      gACCCCaTgTaTaCTGTgTCTGCTGgcACCCA--------------aaaGTcCtCAtg--
BtRf-BetaCoV/HeB2013                  gAtCCCaTgTaTaCcGTgTCTGCTGgcACCCA--------------aGtGTcCtCAtg--

SARS_CORONAVIRUS                      CgTcC--------------------TTgATTG----------------------------
Severe_acute_respiratory_syndrom      gtTcagAgttTATTC--TAgTGCgaaTAATTGCACTTTtGAaTAtgTcTCTcAgcCtTTT
SARS_coronavirus_civet007             CATACTATGATATTCGATAATGCATTTAATTGCACTTTCGAGTACATATCTGATGCCTTT
SARS_coronavirus_GZ50                 CATACTATGATATTCGATAATGCATTTAATTGCACTTTCGAGTACATATCTGATGCCTTT
SARS_coronavirus_Taiwan_TC1           CATACTATGATATTCGATAATGCATTTAATTGCACTTTCGAGTACATATCTGATGCCTTT
Bat_coronavirus_(BtCoV/273/2005)      --------GgTtTatcAgAgTGCtTTcAATTGCACaTaCGAtagagTggaaaAaagCTTc
BtRf-BetaCoV/HeB2013                  --------GgTtTaCcAgAgTGCtTTcAATTGCACaTaCGAtagagTggaaaAaagCTTc

SARS_CORONAVIRUS                      --GCTTGA------AGAgAAG---------------------------------TTTAAg
Severe_acute_respiratory_syndrom      CttaTgGACcTTgaAGgAAAacagGGTAATTTcAAAaAtcTtaGgGAaTTTGTGTTTAAg
SARS_coronavirus_civet007             tCGCTTGAtGTTTCAGAAAAGTCAGGTAATTTTAAACACTTACGAGAGTTTGTGTTTAAA
SARS_coronavirus_GZ50                 tCGCTTGAtGTTTCAGAAAAGTCAGGTAATTTTAAACACTTACGAGAGTTTGTGTTTAAA
SARS_coronavirus_Taiwan_TC1           tCGCTTGAtGTTTCAGAAAAGTCAGGTAATTTTAAACACTTACGAGAGTTTGTGTTTAAA
Bat_coronavirus_(BtCoV/273/2005)      CaaCTaGACacaTCccctAAGaCtGGTAATTTTActgACTTACGtGAGTTTGTcTTTAAA
BtRf-BetaCoV/HeB2013                  CaaCTaGACacaTCccctAAGaCtGGTAATTTTActgACTTACGtGAGTTTGTcTTTAAA

SARS_CORONAVIRUS                      gAaggTGtaGaGTTTCTtAgaG------AcGGtTgggAAatTgTTAA-----------AT
Severe_acute_respiratory_syndrom      AATAtTGATGGtTaTtTtAAaaTaTATtctaagcAcAcgCCTATTAATtTAGTgCGTGAT
SARS_coronavirus_civet007             AATAAaGATGGGTTTCTCtATGTTTATAAGGGCTATcAACCTATagATgTAGTTCGTGAT
SARS_coronavirus_GZ50                 AATAAaGATGGGTTTCTCtATGTTTATAAGGGCTATcAACCTATagATgTAGTTCGTGAT
SARS_coronavirus_Taiwan_TC1           AATAAaGATGGGTTTCTCtATGTTTATAAGGGCTATcAACCTATagATgTAGTTCGTGAT
Bat_coronavirus_(BtCoV/273/2005)      AATcgTGATGGGTTTtTCAcTGcTTAccAGactTATAccCCagTTAAccTccTTaGaGgT
BtRf-BetaCoV/HeB2013                  AATcgTGATGGGTTTtTCAcTGTTTAccAGactTATAccCCagTTAAccTccTTaGaGgT

SARS_CORONAVIRUS                      tTAtCTc------------------AACCTgTgCTTgtgAAATTGtCggTgG--------
Severe_acute_respiratory_syndrom      CTcCCTcagGGTTTTtcggCTTTAgAACCatTggTa---gAtTTGCCaaTaGGTATTAAC
SARS_coronavirus_civet007             CTACCTTCTGGTTTTAACACTTTgAAACCTATTtTT---AAgTTGCCTCTTGGTATTAAg
SARS_coronavirus_GZ50                 CTACCTTCTGGTTTTAACACTTTgAAACCTATTtTT---AAgTTGCCTCTTGGTATTAAC
SARS_coronavirus_Taiwan_TC1           CTACCTTCTGGTTTTAACACTTTgAAACCTATTtTT---AAgTTGCCTCTTGGTATTAAC
Bat_coronavirus_(BtCoV/273/2005)      tTgCCaTCaGGTcTTtcagtTTTAAAACCcATTCTT---AAATTaCCatTTGGaATTAAt
BtRf-BetaCoV/HeB2013                  tTgCCaTCaGGTcTTtcagtTTTAAAACCcATTCTT---AAATTaCCgtTTGGaATTAAt

SARS_CORONAVIRUS                      ---ACAAA--------------------------------TTgT--CACCTGtgCAAAgg
Severe_acute_respiratory_syndrom      ATcACtAggTTTcaAaCttTaCTTgCtttacatagaAGttaTTTgaCtCCTGgTgAttCt
SARS_coronavirus_civet007             ATTACAAATTTTAGAGCCATTCTTAC----------AGCCTTTT--CACCTGCTCAAggC
SARS_coronavirus_GZ50                 ATTACAAATTTTAGAGCCATTCTTAC----------AGCCTTTT--CACCTGCTCAAgaC
SARS_coronavirus_Taiwan_TC1           ATTACAAATTTTAGAGCCATTCTTAC----------AGCCTTTT--CACCTGCTCAAgaC
Bat_coronavirus_(BtCoV/273/2005)      ATTACttcTTTTAGAGtggTTaTggC----------tatgTT--------cagTaAAACC
BtRf-BetaCoV/HeB2013                  ATTACttcTTTTAGAGtggTTaTggC----------AatgTT--------cagTaAAACC

SARS_CORONAVIRUS                      AaaTtAAGGaGagtGT---------------------TcaGacATTaTAgGtCAACCACg
Severe_acute_respiratory_syndrom      tCTTCAgGttGgACagCtGgtgCTGCAGCtTATTATGTgGGtTATcTTcAaCCtAggACt
SARS_coronavirus_civet007             ACTT---GGGGCACGTCAG---CTGCAGCCTATTtTGTtGGCTATTTaAAGCCAACtACA
SARS_coronavirus_GZ50                 ACTT---GGGGCACGTCAG---CTGCAGCCTATTtTGTtGGCTATTTaAAGCCAACtACA
SARS_coronavirus_Taiwan_TC1           AtTT---GGGGCACGTCAG---CTGCAGCCTATTtTGTtGGCTATTTaAAGCCAACtACA
Bat_coronavirus_(BtCoV/273/2005)      ACTTCtAattatgtGcCAGAAAgTGCtGCtTATTATGTgGGtaATcTTAAaCagtCCACc
BtRf-BetaCoV/HeB2013                  ACTTCtAattatgtGcCAGAAAgTGCtGCtTATTATGTgGGCaATcTTAAaCagtCCACt

SARS_CORONAVIRUS                      TTc----------------------------cCgaAGgTG--------TGactTCcAtgc
Severe_acute_respiratory_syndrom      TTTcTatTaAAaTATAATGAAAATGGAACcATtACAGATGCTGTaGAcTGTgCaCttgAc
SARS_coronavirus_civet007             TTTATGCTCAAgTATgATGAAAATGGtACAATCACAGATGCTGTTGATTGTTCTCAAAAT
SARS_coronavirus_GZ50                 TTTATGCTCAAgTATgATGAAAATGGtACAATCACAGATGCTGTTGATTGTTCTCAAAAT
SARS_coronavirus_Taiwan_TC1           TTTATGCTCAAgTATgATGAAAATGGtACAATCACAGATGCTGTTGATTGTTCTCAAAAT
Bat_coronavirus_(BtCoV/273/2005)      TTTATGCTCAgtTtTAATcAgAATGGAACtATtgtAGATGCTGTgGATTGTTCTCAAgAT
BtRf-BetaCoV/HeB2013                  TTTATGCTCAgcTtTAATcAgAATGGAACtATtgtAGATGCTGTgGATTGTTCTCAAgAT

SARS_CORONAVIRUS                      CaAtgcGCgacAtTCcgAaGaACgcTgAAGcGCTggG-----GgCAAA------------
Severe_acute_respiratory_syndrom      CCtCTctCAGAAacaAAgTGtACgtTgAAatcCTTcactgTaGAaAAAGGAATcTAtCAA
SARS_coronavirus_civet007             CCACTTGCtGAACTCAAATGCtCTGTTAAGAGCTTTGAGATTGACAAAGGAATTTACCAg
SARS_coronavirus_GZ50                 CCACTTGCtGAACTCAAATGCtCTGTTAAGAGCTTTGAGATTGACAAAGGAATTTACCAg
SARS_coronavirus_Taiwan_TC1           CCACTTGCtGAACTCAAATGCtCTGTTAAGAGCTTTGAGATTGACAAAGGAATTTACCAg
Bat_coronavirus_(BtCoV/273/2005)      CCACTTGCAGAgtTaAAgTGtACTacaAAaAGtTTTaAtgTctcCAAAGGcATTTAtCAA
BtRf-BetaCoV/HeB2013                  CCACTTGCAGAgtTaAAgTGtACTacaAAaAGtTTTaAtgTctcCAAAGGcATTTAtCAA

SARS_CORONAVIRUS                      ----------------------------------TTGTGcaATTTgcggCcAATgTTtgt
Severe_acute_respiratory_syndrom      ACtTCTAAcTTtAGAGTccaACCAaCAGaAtcTaTTGTtAGATTT---CCTAATATTACA
SARS_coronavirus_civet007             ACCTCTAATTTCAGgGTTgTtCCcTCAGGAGATGTTGTGAGATTc---CCTAATATTACA
SARS_coronavirus_GZ50                 ACCTCTAATTTCAGgGTTgTtCCcTCAGGAGATGTTGTGAGATTc---CCTAATATTACA
SARS_coronavirus_Taiwan_TC1           ACCTCTAATTTCAGgGTTgTtCCcTCAGGAGATGTTGTGAGATTc---CCTAATATTACA
Bat_coronavirus_(BtCoV/273/2005)      ACtTCcAATTTCAGAGTatcACCAgttactGAgGTTGTtAGATTT---CCaAATATTACA
BtRf-BetaCoV/HeB2013                  ACtTCcAATTTCAGAGTatcACCAgttactGAgGTTGTtAGATTT---CCaAATATTACA

SARS_CORONAVIRUS                      AAtcaGTtcCtTgTctGAttaGTTccTggT-CCcCAAAATTTCCTTggGTtTgTtCt---
Severe_acute_respiratory_syndrom      AACTTGTGcCCTTTTGGtGAaGTTTTTAAcGCCACcAgATTTgCaTCTGTtTATGCtTGG
SARS_coronavirus_civet007             AACTTGTGTCCTTTTGGAGAGGTTTTTAATGCtACtAAATTcCCTTCTGTCTATGCATGG
SARS_coronavirus_GZ50                 AACTTGTGTCCTTTTGGAGAGGTTTTTAATGCtACtAAATTcCCTTCTGTCTATGCATGG
SARS_coronavirus_Taiwan_TC1           AACTTGTGTCCTTTTGGAGAGGTTTTTAATGCtACtAAATTcCCTTCTGTCTATGCATGG
Bat_coronavirus_(BtCoV/273/2005)      AAtcTcTGTCCTTTTGacaAGGTTTTTAATGCCACAcgcTTTCCTagTGTCTATGCcTGG
BtRf-BetaCoV/HeB2013                  AAtcTcTGTCCTTTTGacaAGGTTTTTAATGCCACAcgcTTTCCTagTGTCTATGCcTGG

SARS_CORONAVIRUS                      ----GgAccAcgtcTgCcgAaagcTTGTGTTaC-----AtTgTaTGCTtT----------
Severe_acute_respiratory_syndrom      aAcAGgAAgAgAATcagcAA----cTGTGTTGCTGATTAtTCTGTcCTaTAtAAtTCcgC
SARS_coronavirus_civet007             GAGAGgAAAAgAATTTCTAA----TTGTGTTGCTGATTACTCTGTGCTCTACAACTCAAC
SARS_coronavirus_GZ50                 GAGAGAAAAAAAATTTCTAA----TTGTGTTGCTGATTACTCTGTGCTCTACAACTCAAC
SARS_coronavirus_Taiwan_TC1           GAGAGAAAAAAAATTTCTAA----TTGTGTTGCTGATTACTCTGTGCTCTACAACTCAAC
Bat_coronavirus_(BtCoV/273/2005)      GAaAGAAcAAAgATTTCTgA----TTGTGTTGCaGATTACaCTGTttTCTACAACTCAAC
BtRf-BetaCoV/HeB2013                  GAaAGAActAAgATTTCTgA----TTGTGTTGCaGATTACaCTGTttTCTACAACTCAAC

SARS_CORONAVIRUS                      -----------------AGTGgcAgtaCGTTTtTGCC---gAG-------------GCTT
Severe_acute_respiratory_syndrom      ATCaTTTTCcACtTTTAAGTGtTATGGaGTgTCTcCtACTAAaTTaAATGATCTcTGCTT
SARS_coronavirus_civet007             ATCTTTTTCAACCTTTAAGTGCTATGGCGTTTCTGCCACTAAGTTGAATGATCTtTGCTT
SARS_coronavirus_GZ50                 ATtTTTTTCAACCTTTAAGTGCTATGGCGTTTCTGCCACTAAGTTGAATGATCTtTGCTT
SARS_coronavirus_Taiwan_TC1           ATtTTTTTCAACCTTTAAGTGCTATGGCGTTTCTGCCACTAAGTTGAATGATCTtTGCTT
Bat_coronavirus_(BtCoV/273/2005)      tTCTTTTTCgACtTTcAAcTGtTAcGGaGTcTCTcCttCTAAGTTGAtTGATtTgTGtTT
BtRf-BetaCoV/HeB2013                  tTCTTTTTCgACtTTcAAcTGtTAcGGaGTcTCTcCttCTAAGTTGAtTGATtTgTGtTT

SARS_CORONAVIRUS                      CTtAgAaGcCTcaGCAGcagaTTTctTAGT------------------------------
Severe_acute_respiratory_syndrom      taCtAATGTCTATGCAGATTCaTTTGTAaTtAgAGGtGATGAAGTcAGACAAATcGCtCC
SARS_coronavirus_civet007             CTCcAATGTCTATGCAGATTCTTTTGTAGTCAAgGGAGATGAtGTAAGACAAATAGCGCC
SARS_coronavirus_GZ50                 CTCcAATGTCTATGCAGATTCTTTTGTAGTCAAgGGAGATGAtGTAAGACAAATAGCGCC
SARS_coronavirus_Taiwan_TC1           CTCcAATGTCTATGCAGATTCTTTTGTAGTCAAgGGAGATGAtGTAAGACAAATAGCGCC
Bat_coronavirus_(BtCoV/273/2005)      taCAAgTGTgTATGCAGAcaCaTTTtTgaTaAgAttttccGAAGTcAGACAAgTAGCaCC
BtRf-BetaCoV/HeB2013                  taCAAgTGTgTATGCAGAcaCaTTTtTgaTaAgAttttcaGAAGTcAGACAAgTgGCaCC

SARS_CORONAVIRUS                      --GACAgttTGGccTTgTTGtTG-------TTggcctTTACCAGAcatTTT---------
Severe_acute_respiratory_syndrom      AGGgCAAACTGGaaagATTGCTGATTATAATTATAAATTACCAGATGATTTtACAGGCTG
SARS_coronavirus_civet007             AGGACAAACTGGTGTTATTGCTGATTATAATTATAAATTgCCAGATGATTTCAtgGGtTG
SARS_coronavirus_GZ50                 AGGACAAACTGGTGTTATTGCTGATTATAATTATAAATTgCCAGATGATTTCAtgGGtTG
SARS_coronavirus_Taiwan_TC1           AGGACAAACTGGTGTTATTGCTGATTATAATTATAAATTgCCAGATGATTTCAtgGGtTG
Bat_coronavirus_(BtCoV/273/2005)      tGGtCAgACTGGTGTTATTGCaGAcTAcAATTATAAAcTACCtGAcGAcTTtACAGGCTG
BtRf-BetaCoV/HeB2013                  tGGtCAgACTGGTGTTATTGCaGAcTAcAATTATAAAcTACCtGAcGAcTTtACAGGCTG

SARS_CORONAVIRUS                      -------GCT-------------------------CTcaAgCTGGT--------------
Severe_acute_respiratory_syndrom      cGTtATAGCTTGGAATtCTAacAAtcTTGATtCTAaggttggTGGTAATTATAATTAcct
SARS_coronavirus_civet007             TGTCcTtGCTTGGAATACTAGgAACATTGATGCTACTTCAACTGGTAATTATAATTATAA
SARS_coronavirus_GZ50                 TGTCcTtGCTTGGAATACTAGgAACATTGATGCTACTTCAACTGGTAATTATAATTATAA
SARS_coronavirus_Taiwan_TC1           TGTCcTtGCTTGGAATACTAGgAACATTGATGCTACTTCAACTGGTAATTATAATTATAA
Bat_coronavirus_(BtCoV/273/2005)      TGTtATAGCTTGGAAcACTgctAAgcaaGAcG---------tcGGTAgcTATttT-----
BtRf-BetaCoV/HeB2013                  TGTtATAGCTTGGAAcACTgctAAgcaaGAcG---------tcGGTAgcTATttT-----

SARS_CORONAVIRUS                      ------------TcaAtcTGtCAAGCagcAGCaaagcaAGAGcagCAT------------
Severe_acute_respiratory_syndrom      gTATAGaTtgtTTAGgaAgtctAAtCTcAAaCCtTTTGAGAGAGAtATtTCaAcTGaaat
SARS_coronavirus_civet007             ATATAGGTATCTTAGACATGGCAAGCTTAgGCCCTTTGAGAGAGACATATCTAATGTGCC
SARS_coronavirus_GZ50                 ATATAGGTATCTTAGACATGGCAAGCTTAgGCCCTTTGAGAGAGACATATCTAATGTGCC
SARS_coronavirus_Taiwan_TC1           ATATAGGTATCTTAGACATGGCAAGCTTAgGCCCTTTGAGAGAGACATATCTAATGTGCC
Bat_coronavirus_(BtCoV/273/2005)      -TATAGGTcTCaTcGctcTaGCAAatTaAAaCCCTTTGAaAGAGAC--------------
BtRf-BetaCoV/HeB2013                  -TATAGGTcTCaTcGctcTaGCAAatTaAAaCCCTTTGAaAGAGAC--------------

SARS_CORONAVIRUS                      ------------------------CACCgCcatTGC----------------caGCCATT
Severe_acute_respiratory_syndrom      cTatcaggCcGgTaGCAcACCTTGtAatggtgtTGaaggTtTTAATTGTTAcTttCCtTT
SARS_coronavirus_civet007             TTTCTCtTCTGATGGCAAACCTTGCACCCCACCTGC---TCcTAATTGTTATTGGCCATT
SARS_coronavirus_GZ50                 TTTCTCccCTGATGGCAAACCTTGCACCCCACCTGC---TCTTAATTGTTATTGGCCATT
SARS_coronavirus_Taiwan_TC1           TTTCTCccCTGATGGCAAACCTTGCACCCCACCTGC---TCTTAATTGTTATTGGCCATT
Bat_coronavirus_(BtCoV/273/2005)      -cTtTCATCaGtTGaagAAaaTgGC---------------------------cGtaCAcT
BtRf-BetaCoV/HeB2013                  -cTtTCATCaGAaGaaA---------------------------ATgGTgtccGtaCAcT

SARS_CORONAVIRUS                      ctAgcAGgAgaagTTc----------CcCtACTgCTGcC-----------------tgGA
Severe_acute_respiratory_syndrom      AcAatcaTATGGTTTc--------cAacCCACTAaTGGtgTTGGtTACCAACCaTACAGA
SARS_coronavirus_civet007             AAgaGgtTATGGTTTT--------TACACCACTAgTGGCATTGGCTACCAACCTTACAGA
SARS_coronavirus_GZ50                 AAATGAtTATGGTTTT--------TACACCACTACTGGCATTGGCTACCAACCTTACAGA
SARS_coronavirus_Taiwan_TC1           AAATGAtTATGGTTTT--------TACACCACTACTGGCATTGGCTACCAACCTTACAGA
Bat_coronavirus_(BtCoV/273/2005)      cAgTacGTATGaTTTTAAcCAAaATgtACCtC--------TTGagTACCAAgCcactAGA
BtRf-BetaCoV/HeB2013                  cAgTacGTATGaTTTTAAtCAAtATgtACCtC--------TTGagTACCAAgCcactAGA

SARS_CORONAVIRUS                      GTTGaA------TtTcTTGAACTgTTg-------CGaCtACGtgaTGaGGAaCgAgA---
Severe_acute_respiratory_syndrom      GTaGTAGTACTTTCTTTTGAACTTcTAcATGCACCaGCaACtGTTTGTGGACCtAAAaag
SARS_coronavirus_civet007             GTTGTAGTACTTTCTTTTGAACTTTTAAATGCACCGGCCACGGTTTGTGGACCAAAATTA
SARS_coronavirus_GZ50                 GTTGTAGTACTTTCTTTTGAACTTTTAAATGCACCGGCCACGGTTTGTGGACCAAAATTA
SARS_coronavirus_Taiwan_TC1           GTTGTAGTACTTTCTTTTGAACTTTTAAATGCACCGGCCACGGTTTGTGGACCAAAATTA
Bat_coronavirus_(BtCoV/273/2005)      GTTGTtGTtCTTTCTTTTGAACTTcTtAATGCACCtGCtACaGTgTGTGGACCAAAATTA
BtRf-BetaCoV/HeB2013                  GTTGTtGTtCTTTCaTTTGAACTccTcAATGCACCtGCtACaGTgTGTGGACCAAAATTA

SARS_CORONAVIRUS                      ------------------------------------------AgaGGcTTgACTGccgCc
Severe_acute_respiratory_syndrom      TCtACTaAttTGgTTAAaAACaAaTGTGTCAATTTCAACTTcAATGGtTTaACaGGcACa
SARS_coronavirus_civet007             TCCACTGACCTtATTAAGAACCAGTGTGTCAATTTtAAtTTTAATGGAcTCACTGGTACT
SARS_coronavirus_GZ50                 TCCACTGACCTtATTAAGAACCAGTGTGTCAATTTtAAtTTTAATGGAcTCACTGGTACT
SARS_coronavirus_Taiwan_TC1           TCCACTGACCTtATTAAGAACCAGTGTGTCAATTTtAAtTTTAATGGAcTCACTGGTACT
Bat_coronavirus_(BtCoV/273/2005)      TCCACTtcatTGgTTAAGAACCAGTGcGTCAAcTTCAACTTTAATGGATTtAaaGGTACT
BtRf-BetaCoV/HeB2013                  TCCACTtcatTGgTTAAGAACCAGTGcGTCAAcTTCAACTTTAATGGATTtAaaGGTACT

SARS_CORONAVIRUS                      tcTGc-----tcCCTTCTgCgtAGAaGccT---------------TTTGGCaaTGtTGTT
Severe_acute_respiratory_syndrom      GGTGTtcTtACTgagTCTaacAAaAaGTTTCtgCCtTTcCAACAATTTGGCaGaGAcaTT
SARS_coronavirus_civet007             GGTGTGTTAACTCCTTCTTCAAAGAGaTTTCAACCATTTCAACAATTTGGCCGTGATGTT
SARS_coronavirus_GZ50                 GGTGTGTTAACTCCTTCTTCAAAGAGaTTTCAACCATTTCAACAATTTGGCCGTGATGTT
SARS_coronavirus_Taiwan_TC1           GGTGTGTTAACTCCTTCTTCAAAGAGaTTTCAACCATTTCAACAATTTGGCCGTGATGTT
Bat_coronavirus_(BtCoV/273/2005)      GGTGTGTTgACcgacTCgTCtAAaAcGTTTCAgtCtTTTCAgCAgTTTGGtCGgGATGca
BtRf-BetaCoV/HeB2013                  GGTGTGTTgACcgacTCgTCtAAaAcGTTTCAgtCtTTTCAgCAgTTTGGtCGgGATGca

SARS_CORONAVIRUS                      cCT--------TGAggaAGTTgtaaCacGATtgCagcAttgTTaGcAggATTgcgggTgc
Severe_acute_respiratory_syndrom      gCTGAcactACTGATgCtGTc----CGtGATC-CacAgACAcTTGAgATtcTtGACATTa
SARS_coronavirus_civet007             TCTGATTTCACTGATTCcGTT----CGAGATC-CTAAAACATcTGAAATATTAGACATTT
SARS_coronavirus_GZ50                 TCTGATTTCACTGATTCcGTT----CGAGATC-CTAAAACATcTGAAATATTAGACATTT
SARS_coronavirus_Taiwan_TC1           TCTGATTTCACTGATTCcGTT----CGAGATC-CTAAAACATcTGAAATATTAGACATTT
Bat_coronavirus_(BtCoV/273/2005)      TCTGATTTtACTGATTCAGTg----CGtGAcC-CgcAAACtTTacggATAcTtGACATTT
BtRf-BetaCoV/HeB2013                  TCTGATTTtACTGATTCAGTg----CGtGAcC-CgcAAACtTTacggATAcTtGACATTT

SARS_CORONAVIRUS                      CAatGTGaTCTTTTGGTGtatTcAagGctccctCAgtTGcAAC-------cCATaTGA--
Severe_acute_respiratory_syndrom      CACCaTGtTCTTTTGGTGGTGTcAGTGTtATAACACCaGGAACAAATACTTCtaaccAgG
SARS_coronavirus_civet007             CACCtTGCTCTTTTGGgGGTGTAAGTGTAATtACACCTGGAACAAATgCTTCATCTGAAG
SARS_coronavirus_GZ50                 CACCtTGCTCTTTTGGgGGTGTAAGTGTAATtACACCTGGAACAAATgCTTCATCTGAAG
SARS_coronavirus_Taiwan_TC1           CACCtTGCTCTTTTGGgGGTGTAAGTGTAATtACACCTGGAACAAATgCTTCATCTGAAG
Bat_coronavirus_(BtCoV/273/2005)      CACCGTGCTCTTTTGGTGGTGTgAGTGTcATAACACCaGGAACtAAcACTTCATCTGcAG
BtRf-BetaCoV/HeB2013                  CACCGTGCTCTTTTGGTGGTGTgAGTGTcATAACACCaGGAACtAAcACTTCATCTGcAG

SARS_CORONAVIRUS                      -TGCcGTctT---------TGTTAgCacCAtaGggaagtccaGcTTCTggccCAgTTCct
Severe_acute_respiratory_syndrom      TTGCTGTTCTtTATCAgGATGTTAACTGCACaGA-------aGTccCTgttGCtATTC--
SARS_coronavirus_civet007             TTGCTGTTCTATATCAAGATGTTAACTGCACTGA-------TGTTTCTACAttAATTC--
SARS_coronavirus_GZ50                 TTGCTGTTCTATATCAAGATGTTAACTGCACTGA-------TGTTTCTACAGCAATTC--
SARS_coronavirus_Taiwan_TC1           TTGCTGTTCTATATCAAGATGTTAACTGCACTGA-------TGTTTCTACAGCAATTC--
Bat_coronavirus_(BtCoV/273/2005)      TgGCTGTTCTtTAcCAAGATGTaAACTGCACTGA-------TGTTcCcAgAaCAATaC--
BtRf-BetaCoV/HeB2013                  TgGCTGTTCTtTAcCAAGATGTaAACTGCACTGA-------TGTTcCcACAaCAtTaC--

SARS_CORONAVIRUS                      AgGtAGtagAA---AtACCAtCTTGGacTGagatctTTcATTtTACcGtcACCAccAcGa
Severe_acute_respiratory_syndrom      ATGCAGATCAACTtACtCCtaCTTGGCGTG------TTTATTCTACaGGttCtA--ATGT
SARS_coronavirus_civet007             ATGCAGAaCAACTCACACCAGCTTGGCGca------TaTATTCTACTGGAAaCA--ATGT
SARS_coronavirus_GZ50                 ATGCAGATCAACTCACACCAGCTTGGCGca------TaTATTCTACTGGAAaCA--ATGT
SARS_coronavirus_Taiwan_TC1           ATGCAGATCAACTCACACCAGCTTGGCGca------TaTATTCTACTGGAAaCA--ATGT
Bat_coronavirus_(BtCoV/273/2005)      AaGCAGATCAAtTagCACCctCTTGGCGTG------TTTATaCcACTGGAcCCt--ATGT
BtRf-BetaCoV/HeB2013                  ATGCAGATCAAtTagCACCctCTTGGCGTG------TTTATaCcACTGGAcCCt--ATGT

SARS_CORONAVIRUS                      ATTC----gTCtgGtA-GCTcTtcggTAGtAGCcaattTGgtCATcTgGAC---TgCTAT
Severe_acute_respiratory_syndrom      tTTtCAAACaCgtGCAGGCTGTtTaATAGGgGC-----TGAACATGTCaACAacTCaTAT
SARS_coronavirus_civet007             ATTCCAgACTCAAGCAGGCTGTCTTATAGGAGC-----TGAgCATGTCGACACTTCtTAT
SARS_coronavirus_GZ50                 ATTCCAgACTCAAGCAGGCTGTCTTATAGGAGC-----TGAgCATGTCGACACTTCtTAT
SARS_coronavirus_Taiwan_TC1           ATTCCAgACTCAAGCAGGCTGTCTTATAGGAGC-----TGAgCATGTCGACACTTCtTAT
Bat_coronavirus_(BtCoV/273/2005)      tTTCCAAACaCAAGCAGGgTGcCTTATAGGAGC-----TGAACATGTCaACgCaTCCTAT
BtRf-BetaCoV/HeB2013                  tTTCCAAACaCAAGCAGGgTGcCTTATAGGAGC-----TGAACATGTCaACgCaTCCTAT

SARS_CORONAVIRUS                      tgGTGTtA-------ATTGGAaC--GC-cTTGTcCTcGagggaATtt-------AaggTC
Severe_acute_respiratory_syndrom      GAGTGTGACATaCCcATTGGtGCaGGtATaTGcGCTAGTTAtCAgACtcagactAaTTct
SARS_coronavirus_civet007             GAGTGcGACATTCCTATTGGAGCTGGCATTTGTGCTAGTTACCATAC-------AGTTTC
SARS_coronavirus_GZ50                 GAGTGcGACATTCCTATTGGAGCTGGCATTTGTGCTAGTTACCATAC-------AGTTTC
SARS_coronavirus_Taiwan_TC1           GAGTGcGACATTCCTATTGGAGCTGGCATTTGTGCTAGTTACCATAC-------AGTTTC
Bat_coronavirus_(BtCoV/273/2005)      cAGTGTGACATTCCaATTGGtGCTGGCATTTGTGCTAGcTAtCATAC-------AGccTC
BtRf-BetaCoV/HeB2013                  cAGTGTGACATTCCaATTGGtGCTGGCATTTGTGCTAGcTAtCATAC-------AGccTC

SARS_CORONAVIRUS                      TTccTtgccaTgttgAGTgagAGCggtgAAcCaagacgcagTATTaTtGggTAaAC----
Severe_acute_respiratory_syndrom      ccTcggcgggcACGTAGTgtAgctagtcAATC---------cATcaTtGCCTAcACTATG
SARS_coronavirus_civet007             TTcAT-----TACGTAGTACtAGCCAAAAATC---------TATTGTGGCtTATACTATG
SARS_coronavirus_GZ50                 TTTAT-----TACGTAGTACtAGCCAAAAATC---------TATTGTGGCtTATACTATG
SARS_coronavirus_Taiwan_TC1           TTTAT-----TACGTAGTACtAGCCAAAAATC---------TATTGTGGCtTATACTATG
Bat_coronavirus_(BtCoV/273/2005)      acacT-----TACGgAGTACAgGtCAAAAATC---------cATTGTGGCCTATACTATG
BtRf-BetaCoV/HeB2013                  acTtT-----TACGgAGTACAgGtCAAAAATC---------TATTGTGGCCTATACTATG

SARS_CORONAVIRUS                      ---cTtGGgGCcGAcg----------TTgtTtTgATcgCgC----------CCcACTgcg
Severe_acute_respiratory_syndrom      TCAcTtGGTGCaGAAAATTCAgTTGCTTACTCTAATAACtCtATTGCCATACCcACaAAt
SARS_coronavirus_civet007             TCtTTAGGTGCTGAtAgTTCAATTGCTTACTCTAATAACACCATTGCtATACCTACTAAC
SARS_coronavirus_GZ50                 TCtTTAGGTGCTGAtAgTTCAATTGCTTACTCTAATAACACCATTGCtATACCTACTAAC
SARS_coronavirus_Taiwan_TC1           TCtTTAGGTGCTGAtAgTTCAATTGCTTACTCTAATAACACCATTGCtATACCTACTAAC
Bat_coronavirus_(BtCoV/273/2005)      TCATTAGGTGCTGAAAATTCtgTgGCaTAtgCTAATAAttCCATTGCCATACCTACTAAt
BtRf-BetaCoV/HeB2013                  TCATTAGGTGCTGAAAATTCtgTgGCaTAtgCTAATAAttCCATTGCCATACCcACTAAt

SARS_CORONAVIRUS                      TTcTCcATTctgGTTACTgC--------------------------------CaGTtGA-
Severe_acute_respiratory_syndrom      TTTaCtATTAGtGTTACcACAGAAaTtcTaCCaGTgTCTATGaCcAAgACATCaGTAGAT
SARS_coronavirus_civet007             TTTTCAATTAGCaTTACTACAGAAGTAATGCCTGTTTCTATGGCTAAAACcTCCGTAGAT
SARS_coronavirus_GZ50                 TTTTCAATTAGCaTTACTACAGAAGTAATGCCTGTTTCTATGGCTAAAACcTCCGTAGAT
SARS_coronavirus_Taiwan_TC1           TTTTCAATTAGCaTTACTACAGAAGTAATGCCTGTTTCTATGGCTAAAACcTCCGTAGAT
Bat_coronavirus_(BtCoV/273/2005)      TTTTCtATTAGtGTcACTACtGAAGTgATGCCTGTTTCTATGGCTAAAACATCtGTcGAT
BtRf-BetaCoV/HeB2013                  TTTTCtATTAGtGTcACTACtGAAGTgATGCCTGTTTCTATGGCTAAAACATCtGTcGAT

SARS_CORONAVIRUS                      ------------ATCTGaGGg---TCcACcaAAcGTAaT--------------gcggGGT
Severe_acute_respiratory_syndrom      TGTAcaATGTACATtTGtGGtGATTCaACTGAATGcAgcAATCTttTGtTgCAATATGGc
SARS_coronavirus_civet007             TGTAATATGTACATCTGCGGAGATTCTACTGAATGTgCTAATtTGCTtCTCCAATATGGT
SARS_coronavirus_GZ50                 TGTAATATGTACATCTGCGGAGATTCTACTGAATGTgCTAATtTGCTtCTCCAATATGGT
SARS_coronavirus_Taiwan_TC1           TGTAATATGTACATCTGCGGAGATTCTACTGAATGTgCTAATtTGCTtCTCCAATATGGT
Bat_coronavirus_(BtCoV/273/2005)      TGTAcTATGTACATCTGtGGtGATTCTttaGAgTGcAgTAAcCTaCTGCTtCAgTATGGT
BtRf-BetaCoV/HeB2013                  TGTAcTATGTACATCTGtGGtGATTCTttaGAgTGcAgTAAcCTaCTGCTtCAgTATGGT

SARS_CORONAVIRUS                      gcaTTTcGC---tgAtTttgggGTcCAtTaTCAGaCATTttaGTT---------------
Severe_acute_respiratory_syndrom      AGtTTTTGtACACAAtTAAAcCGTGCttTaaCtGGaATaGCTGTTGAACAaGAcAAAAAC
SARS_coronavirus_civet007             AGCTTTTGCAgACAACTAAATCGTGCACTCTCAGGtATTGCTGcTGAACAGGATcgcAAC
SARS_coronavirus_GZ50                 AGCTTTTGCACACAACTAAATCGTGCACTCTCAGGtATTGCTGcTGAACAGGATcgcAAC
SARS_coronavirus_Taiwan_TC1           AGCTTTTGCACACAACTAAATCGTGCACTCTCAGGtATTGCTGcTGAACAGGATcgcAAC
Bat_coronavirus_(BtCoV/273/2005)      AGCTTcTGtACcCAACTtAATCGTGCcCTtTCtGGCATTGCTGTaGAACAGGATAAAAAC
BtRf-BetaCoV/HeB2013                  AGCTTcTGtACcCAACTtAAcCGTGCcCTtTCtGGCATTGCTGTaGAACAGGAcAAAAAC

SARS_CORONAVIRUS                      ----------TGTTCGtTtAgaTgAAAtctA---AaAcAACACgAACgTcAtgAtAcTcT
Severe_acute_respiratory_syndrom      ACcCAAGAAGTtTTtGCaCAAGTCAAACAAATtTACAAAACACCAcCaaTtAAAGATTTT
SARS_coronavirus_civet007             ACACgtGAAGTGTTCGtTCAAGTCAAACAAATGTACAAAACcCCAACTTTgAAAGATTTT
SARS_coronavirus_GZ50                 ACACgtGAAGTGTTCGCTCAAGTCAAACAAATGTACAAAACcCCAACTTTgAAAGATTTT
SARS_coronavirus_Taiwan_TC1           ACACgtGAAGTGTTCGCTCAAGTCAAACAAATGTACAAAACcCCAACTTTgAAAtATTTT
Bat_coronavirus_(BtCoV/273/2005)      ACcCAAGAgGTGTTtGCcCAgGTtAAACAgATGTAtAAAACACCAACcaTAAgAGATTTT
BtRf-BetaCoV/HeB2013                  ACcCAAGAgGTGTTtGCcCAgGTtAAACAgATGTAtAAAACACCAACTaTAAgAGATTTT

SARS_CORONAVIRUS                      aa------aAAgTcTTCAtAgAacgaACaAcgCaCTacAAgaCtAcCcAAt---------
Severe_acute_respiratory_syndrom      GGTGGTTTTAATTTTTCACAAATATTACCAGAtCCatcAAAaCCAAgcAAGAGGTCaTTT
SARS_coronavirus_civet007             GGTGGTTTTAATTTTTCACAAATATTACCtGACCCTCTAAAGCCAACTAAGAGGTCTTTT
SARS_coronavirus_GZ50                 GGTGGTTTTAATTTTTCACAAATATTACCtGACCCTCTAAAGCCAACTAAGAGGTCTTTT
SARS_coronavirus_Taiwan_TC1           GGTGGTTTTAATTTTTCACAAATATTACCtGACCCTCTAAAGCCAACTAAGAGGTCTTTT
Bat_coronavirus_(BtCoV/273/2005)      GGTGGTTTTAATTTcTCtCAgATATTACCAGACCCTtTgAAGCCtACTAAGcGtTCTTTT
BtRf-BetaCoV/HeB2013                  GGTGGTTTTAATTTcTCtCAgATATTACCAGACCCTtTgAAaCCtACTAAGcGtTCTTTT

SARS_CORONAVIRUS                      -TTagGttCcTGgcaaTTAATtgtaaAAGGTaAa------------------CAgGAAAC
Severe_acute_respiratory_syndrom      ATTGAaGAtcTaCTtTTcAAc-----AAaGTGACACTtGCaGATGCTGGCTTCATcAAAC
SARS_coronavirus_civet007             ATTGAGGACTTGCTCTTTAAT-----AAGGTGACACTCGCTGATGCTGGCTTCATGAAgC
SARS_coronavirus_GZ50                 ATTGAGGACTTGCTCTTTAAT-----AAGGTGACACTCGCTGATGCTGGCTTCATGAAgC
SARS_coronavirus_Taiwan_TC1           ATTGAGGACTTGCTCTTTAAT-----AAGGTGACACTCGCTGATGCTGGCTTCATGAAgC
Bat_coronavirus_(BtCoV/273/2005)      ATaGAGGAtTTGCTCTacAAc-----AAaGTaACACTCGCgGATGCaGGtTTCATGAAAC
BtRf-BetaCoV/HeB2013                  ATaGAGGAtTTGCTCTacAAc-----AAaGTaACACTCGCgGATGCaGGCTTCATGAAAC

SARS_CORONAVIRUS                      tgTATa-----------------ATTAccGaTA------------------------TCg
Severe_acute_respiratory_syndrom      AATATGGtGAtTGCCTtGGTGATATTgcTGCTAGAGAcCTCATTTGTGCaCAAAAGTTtA
SARS_coronavirus_civet007             AATATGGCGAATGCCTAGGTGATATTAATGCTAGAGATCTCATTTGTGCGCAgAAGTTCA
SARS_coronavirus_GZ50                 AATATGGCGAATGCCTAGGTGATATTAATGCTAGAGATCTCATTTGTGCGCAgAAGTTCA
SARS_coronavirus_Taiwan_TC1           AATATGGCGAATGCCTAGGTGATATTAATGCTAGAGATCTCATTTGTGCGCAgAAGTTCA
Bat_coronavirus_(BtCoV/273/2005)      AgTATGcaGAcTGtCTgGGTGgTATTAAcGCaAGAGATCTCATcTGTGCtCAAAAGTTtA
BtRf-BetaCoV/HeB2013                  AgTATGcaGAcTGttTgGGTGgTATTAAcGCaAGAGATCTCATcTGTGCtCAAAAGTTtA

SARS_CORONAVIRUS                      ATGtAC--------------------CTtACTaATGATgT--TTctTtttTA-------G
Severe_acute_respiratory_syndrom      AcGGcCTTACtGTtTTGCCACCTtTGCTCACaGATGAaATGATTGCTcaaTACACTtCTG
SARS_coronavirus_civet007             ATGGACTTACAGTgTTGCCACCTCTGCTCACTGATGATATGATTGCTGCCTACACTGCTG
SARS_coronavirus_GZ50                 ATGGACTTACAGTgTTGCCACCTCTGCTCACTGATGATATGATTGCTGCCTACACTGCTG
SARS_coronavirus_Taiwan_TC1           ATGGACTTACAGTgTTGCCACCTCTGCTCACTGATGATATGATTGCTGCCTACACTGCTG
Bat_coronavirus_(BtCoV/273/2005)      ATGGACTgACAGTcTTaCCACCTtTGCTCACTGATGAcATGATTGCTGCCTAtACTGCaG
BtRf-BetaCoV/HeB2013                  ATGGACTcACAGTcTTaCCACCTtTGCTCACTGATGAcATGATTGCaGCCTACACTGCTG

SARS_CORONAVIRUS                      CaCaTAtTcAGT---------------GGATGGttATgT----------tcaCaCcTttA
Severe_acute_respiratory_syndrom      CaC-TgtTagcgGGTACaatCACTtCTGGtTGGACcTTTGGTGCAGGtGCTGCatTaCAA
SARS_coronavirus_civet007             CTC-TAGTTAGTGGTACTGCCACTGCTGGATGGACATTTGGTGCtGGCGCTGCTCTTCAA
SARS_coronavirus_GZ50                 CTC-TAGTTAGTGGTACTGCCACTGCTGGATGGACATTTGGTGCtGGCGCTGCTCTTCAA
SARS_coronavirus_Taiwan_TC1           CTC-TAGTTAGTGGTACTGCCACTGCTGGATGGACATTTGGTGCtGGCGCTGCTCTTCAA
Bat_coronavirus_(BtCoV/273/2005)      CgC-TcaTTAGTGGcACTGCCACTGCaGGcTGGACtTTcGGTGCAGGtGCaGCcCTTCAA
BtRf-BetaCoV/HeB2013                  CgC-TcaTTAGTGGcACTGCCACTGCaGGcTGGACtTTcGGTGCAGGtGCaGCcCTTCAA

SARS_CORONAVIRUS                      gTACCTTTctggATaacAATtGCTTATA---TCAtTtGtAT-----TTcCaCAAAgcaTT
Severe_acute_respiratory_syndrom      ATACCaTTTGCTATGCAAATGGCTTATAGGTTtAATGGtATTGGAGTTACaCAgAATGTT
SARS_coronavirus_civet007             ATACCTTTTGCTATGCAAATGGCaTATAGGTTCAATGGCATTGGAGTTACCCAAAATGTT
SARS_coronavirus_GZ50                 ATACCTTTTGCTATGCAAATGGCaTATAGGTTCAATGGCATTGGAGTTACCCAAAATGTT
SARS_coronavirus_Taiwan_TC1           ATACCTTTTGCTATGCAAATGGCaTATAGGTTCAATGGCATTGGAGTTACCCAAAATGTT
Bat_coronavirus_(BtCoV/273/2005)      ATACCTTTTGCTATGCAAATGGCTTATAGGTTtAATGGCATTGGAGTTACtCAAAATGTT
BtRf-BetaCoV/HeB2013                  ATACCTTTTGCTATGCAAATGGCTTATAGGTTtAAcGGCATTGGAGTTACtCAAAATGTT

SARS_CORONAVIRUS                      -TCTATtgGttCtttAg--tAATTaCC--------TAAagAGaCGtgTAGTC---TTtAA
Severe_acute_respiratory_syndrom      CTCTATGAGAACCAAAAAttgATTGCCAACCAATTTAAtAgtGCtATTgGcaAAATTCAA
SARS_coronavirus_civet007             CTCTATGAGAACCAAAAACAAATcGCCAACCAATTTAACAAGGCGATTAGTCAAATTCAA
SARS_coronavirus_GZ50                 CTCTATGAGAACCAAAAACAAATcGCCAACCAATTTAACAAGGCGATTAGTCAAATTCAA
SARS_coronavirus_Taiwan_TC1           CTCTATGAGAACCAAAAACAAATcGCCAACCAATTTAACAAGGCGATTAGTCAAATTCAA
Bat_coronavirus_(BtCoV/273/2005)      CTCTAcGAGAACCAAAAACAAATTGCCAAtCAgTTcAAtAAGGCtATTAcTCAAATTCAA
BtRf-BetaCoV/HeB2013                  CTCTAcGAGAACCAAAAACAAATTGCCAAtCAgTTcAAtAAGGCtATTAcTCAAATTCAA

SARS_CORONAVIRUS                      tggTgttTc-------CtTtAgtacttTTGaagAAGCTGC-----GcTGTgcACCttttT
Severe_acute_respiratory_syndrom      GAcTCACTTtCttCcACAgCAAgTGCAcTtGGaAAaCTtCAAGAtGTgGTCAACCAaAAT
SARS_coronavirus_civet007             GAATCACTTACAACAACATCAACTGCATTGGGCAAGCTGCAAGACGTTGTtAACCAGAAT
SARS_coronavirus_GZ50                 GAATCACTTACAACAACATCAACTGCATTGGGCAAGCTGCAAGACGTTGTtAACCAGAAT
SARS_coronavirus_Taiwan_TC1           GAATCACTTACAACAACATCAACTGCATTGGGCAAGCTGCAAGACGTTGTtAACCAGAAT
Bat_coronavirus_(BtCoV/273/2005)      GAATCACTcACAACtACATCgACaGCATTGGGCAAGCTGCAAGACGTaGTCAACCAGAAT
BtRf-BetaCoV/HeB2013                  GAATCACTcACAACtACATCgACaGCATTGGGCAAGCTGCAAGACGTaGTCAACCAGAAT

SARS_CORONAVIRUS                      GtTaAAtaAagAAAtgtAtcTaaaGTTgcgtAgtgatGtgCTAATTccGGTGacATccCg
Severe_acute_respiratory_syndrom      GCaCAAGCtTTAAACACgCTT---GTTAAACAACTTAGCTCcAATTTTGGTGCAATTTCA
SARS_coronavirus_civet007             GCTCAAGCATTAAACACACTT---GTTAAACAACTTAGCTCTAATTTTGGTGCAATTTCA
SARS_coronavirus_GZ50                 GCTCAAGCATTAAACACACTT---GTTAAACAACTTAGCTCTAATTTTGGTGCAATTTCA
SARS_coronavirus_Taiwan_TC1           GCTCAAGCATTAAACACACTT---GTTAAACAACTTAGCTCTAATTTTGGTGCAATTTCA
Bat_coronavirus_(BtCoV/273/2005)      GCTCAAGCATTAAAtACACTT---GTcAAACAACTTAGCTCcAATTTTGGTGCtATTTCA
BtRf-BetaCoV/HeB2013                  GCTCAAGCATTAAAtACACTT---GTcAAACAACTTAGCTCcAATTTTGGTGCtATTTCA

SARS_CORONAVIRUS                      gaaccG--AgATaATgaCC-ccaAtGACTacgTggAGc--AGGatGAcaTcCtcATcGtC
Severe_acute_respiratory_syndrom      AGTGTttTAAATGATATCCTTTCACGtCTTGAcAAAGTtGAGGCtGAaGTgCAAATTGAt
SARS_coronavirus_civet007             AGTGTGCTAAATGATATCCTTTCgCGACTTGATAAAGTCGAGGCGGAGGTACAAATTGAC
SARS_coronavirus_GZ50                 AGTGTGCTAAATGATATCCTTTCgCGACTTGATAAAGTCGAGGCGGAGGTACAAATTGAC
SARS_coronavirus_Taiwan_TC1           AGTGTGCTAAATGATATCCTTTCgCGACTTGATAAAGTCGAGGCGGAGGTACAAATTGAC
Bat_coronavirus_(BtCoV/273/2005)      AGTGcttTgAATGAcATCCTcTCACGACTTGAcAAAGTtGAGGCaGAGGTgCAAATTGAC
BtRf-BetaCoV/HeB2013                  AGTGcttTgAATGATATCCTcTCACGACTTGAcAAAGTtGAGGCaGAGGTgCAAATTGAC

SARS_CORONAVIRUS                      AaGTTGAgaAagGGCcaggagCtgAGaCTTCgAgCCTATG-----------CcAAaaAGG
Severe_acute_respiratory_syndrom      AGGTTGATcACAGGCAGACTTCAAAGttTgCAgACaTATGTgACtCAACAAtTAATtAGa
SARS_coronavirus_civet007             AGGTTaATTACAGGCAGACTTCAAAGCCTTCAAACCTATGTAACACAACAACTAATCAGG
SARS_coronavirus_GZ50                 AGGTTaATTACAGGCAGACTTCAAAGCCTTCAAACCTATGTAACACAACAACTAATCAGG
SARS_coronavirus_Taiwan_TC1           AGGTTaATTACAGGCAGACTTCAAAGCCTTCAAACCTATGTAACACAACAACTAATCAGG
Bat_coronavirus_(BtCoV/273/2005)      AGGTTGATTACAGGCAGAtTaCAAAGCCTcCAAACCTATGTAACACAACAACTAATCAGa
BtRf-BetaCoV/HeB2013                  AGGTTGATTACAGGCAGAtTaCAAAGCCTcCAAACCTATGTAACACAACAAtTAATCAGa

SARS_CORONAVIRUS                      GCTttgGcAAggAGcatgcCaagTggAAcCcTaCTGC-----------------------
Severe_acute_respiratory_syndrom      GCTGCaGAAATCAGaGCTTCTGCT--AATCTTGCTGCTACTAAAATGTCaGAGTGTGTaC
SARS_coronavirus_civet007             GCTGCTGAAATCAGGGCTTCTGCT--AATCTTGCTGCTACTAAAATGTCTGAGTGTGTTC
SARS_coronavirus_GZ50                 GCTGCTGAAATCAGGGCTTCTGCT--AATCTTGCTGCTACTAAAATGTCTGAGTGTGTTC
SARS_coronavirus_Taiwan_TC1           GCTGCTGAAATCAGGGCTTCTGCT--AATCTTGCTGCTACTAAAATGTCTGAGTGTGTTC
Bat_coronavirus_(BtCoV/273/2005)      GCTGCTGAAATCAGGGCTTCTGCT--AATCTTGCTGCTACcAAAATGTCTGAGTGTGTTC
BtRf-BetaCoV/HeB2013                  GCTGCTGAAATCAGGaCTTCTGCT--AATCTTGCTGCTACTAAAATGTCTGAGTGTGTTC

SARS_CORONAVIRUS                      --------------AGgGgTGgCTTTT---GAAtacGaT-CCAgacaATGcCCT------
Severe_acute_respiratory_syndrom      TTGGACAATCAAAAAGAGTTGAtTTTTGTGGAAAGGGCTAtCAtCTTATGTCCTTCCCtC
SARS_coronavirus_civet007             TTGGACAATCAAAAAGAGTTGACTTTTGcGGAAAGGGCTACCACCTTATGTCCTTCCCAC
SARS_coronavirus_GZ50                 TTGGACAATCAAAAAGAGTTGACTTTTGTGGAAAGGGCTACCACCTTATGTCCTTCCCAC
SARS_coronavirus_Taiwan_TC1           TTGGACAATCAAAAAGAGTTGACTTTTGTGGAAAGGGCTACCACCTTATGTCCTTCCCAC
Bat_coronavirus_(BtCoV/273/2005)      TTGGACAATCgAAAAGAGTTGAtTTTTGTGGAAAaGGCTACCACCTTATGTCtTTCCCtC
BtRf-BetaCoV/HeB2013                  TTGGACAATCgAAAAGAGTTGAtTTTTGTGGAAAaGGtTAtCACCTTATGTCtTTCCCtC

SARS_CORONAVIRUS                      -----GaggCACAcaGTGT---------------------------AcCCCAAGcccGAG
Severe_acute_respiratory_syndrom      AgtCAGCaCCtCATGGTGTaGTCTTCtTgCATGTgACtTATGTcCCtgCaCAAG--AaAa
SARS_coronavirus_civet007             AAGCAGCCCCgCATGGTGTTGTCTTCCTACATGTCACGTATGTGCCATCCCAgG--AGAG
SARS_coronavirus_GZ50                 AAGCAGCCCCgCATGGTGTTGTCTTCCTACATGTCACGTATGTGCCATCCCAgG--AGAG
SARS_coronavirus_Taiwan_TC1           AAGCAGCCCCgCATGGTGTTGTCTTCCTACATGTCACGTATGTGCCATCCCAgG--AGAG
Bat_coronavirus_(BtCoV/273/2005)      AAtCcGCtCCACATGGTGTTGTgTTCtTACATGTCACtTATGTGCCATCaCAAG--AaAa
BtRf-BetaCoV/HeB2013                  AAtCcGCtCCACATGGTGTTGTgTTCtTACATGTCACtTATGTGCCATCaCAAG--AaAG

SARS_CORONAVIRUS                      GAA--TggCCAaAGaGtgAGtAcTcgGagctggATGAgGatgAgtCgcAggctCCctaTG
Severe_acute_respiratory_syndrom      GAACTTCACaACtGCtCCtGCcATTTG----TCATGAtGGaAAAGCAcACTTtCCTCGTG
SARS_coronavirus_civet007             GAACTTCACCACAGCGCCAGCAATTTG----TCATGAAGGCAAAGCATACTTCCCTCGTG
SARS_coronavirus_GZ50                 GAACTTCACCACAGCGCCAGCAATTTG----TCATGAAGGCAAAGCATACTTCCCTCGTG
SARS_coronavirus_Taiwan_TC1           GAACTTCACCACAGCGCCAGCAATTTG----TCATGAAGGCAAAGCATACTTCCCTCGTG
Bat_coronavirus_(BtCoV/273/2005)      GAACTTCACCACtGCcCCAGCAATTTG----TCATGAAGGtAAgGCATACTTCCCTCGTG
BtRf-BetaCoV/HeB2013                  GAACTTCACCACcGCcCCAGCAATTTG----TCATGAAGGCAAAGCATACTTCCCTCGTG

SARS_CORONAVIRUS                      A------------ccCcAAcGGCAagcCagaaagGtTTTAcTACAatGtGGAgTccTgTg
Severe_acute_respiratory_syndrom      AAGGTGTcTTTGTtTCaAATGGCACaca----cTGGTTTgTaACACAaAGGAATTTTTaT
SARS_coronavirus_civet007             AAGGTGTtTTTGTGTtTAgTGGCACTTC----TTGGTTTATTACACAGAGGAAcTTcTTT
SARS_coronavirus_GZ50                 AAGGTGTtTTTGTGTtTAATGGCACTTC----TTGGTTTATTACACAGAGGAAcTTcTTT
SARS_coronavirus_Taiwan_TC1           AAGGTGTtTTTGTGTtTAATGGCACTTC----TTGGTTTATTACACAGAGGAAcTTcTTT
Bat_coronavirus_(BtCoV/273/2005)      AAGGTGTgTTTGTaTCTAATGGCAgTTC----TTGGTTTATTACACAGAGGAATTTTTaT
BtRf-BetaCoV/HeB2013                  AAGGTGTgTTTGTaTCTAATGGCAgTTt----TTGGTTTATTACACAGAGGAATTTTTaT

SARS_CORONAVIRUS                      gCTC--------------------------TcTGcgTCctGAAAccatTGcTaTaGTagT
Severe_acute_respiratory_syndrom      gaaCCACAAATcATTACTACAGACAAcACATTTGTgTCtGGtAAcTG-TGATGTtGTaAT
SARS_coronavirus_civet007             TCTCCACAAATAATTACTACAGACAATACATTTGTCTCAGGAAATTG-TGATGTCGTTAT
SARS_coronavirus_GZ50                 TCTCCACAAATAATTACTACAGACAATACATTTGTCTCAGGAAATTG-TGATGTCGTTAT
SARS_coronavirus_Taiwan_TC1           TCTCCACAAATAATTACTACAGACAATACATTTGTCTCAGGAAATTG-TGATGTCGTTAT
Bat_coronavirus_(BtCoV/273/2005)      TCaCCACAgATAATcACaACAGACAATACATTTGTCgCcGGAAgTTG-TGATGTCGTcAT
BtRf-BetaCoV/HeB2013                  TCaCCACAgATAATcACaACAGACAATACATTTGTCgCcGGAAgTTG-TGATGTCGTcAT

SARS_CORONAVIRUS                      cGGCATagatgCtTTAAttctAgAaTTTgTacTtCtagtaaaagTacaCAAttgtAGC--
Severe_acute_respiratory_syndrom      aGGaAT-----tgTcAACAACACAGTTTATGATCC---------TtTGCAACCTGAatTa
SARS_coronavirus_civet007             TGGCAT-----CATTAACAACACAGTTTATGATCC---------TCTGCAACCTGAGCTT
SARS_coronavirus_GZ50                 TGGCAT-----CATTAACAACACAGTTTATGATCC---------TCTGCAACCTGAGCTT
SARS_coronavirus_Taiwan_TC1           TGGCAT-----CATTAACAACACAGTTTATGATCC---------TCTGCAACCTGAGCTT
Bat_coronavirus_(BtCoV/273/2005)      TGGaAT-----CATTAACAAtACAGTTTATGATCC---------TCTGCAACCTGAGCTT
BtRf-BetaCoV/HeB2013                  TGGaAT-----CATTAAtAAtACAGTTTATGATCC---------TCTGCAACCTGAGCTT

SARS_CORONAVIRUS                      -AaTaAagtAAAGAAataAGgcAtAtAAtTAgTaCAAAcAcggTttaAaCACCgtgTaac
Severe_acute_respiratory_syndrom      GACTCATTCAAgGAg--GAGtTAGAtAAaTAtTTtAAgAATCATAC-ATCACCAGATGTT
SARS_coronavirus_civet007             GACTCATTCAAAGAA--GAGCTgGACAAGTACTTCAAAAATCATAC-ATCACCAGATGTT
SARS_coronavirus_GZ50                 GACTCATTCAAAGAA--GAGCTgGACAAGTACTTCAAAAATCATAC-ATCACCAGATGTT
SARS_coronavirus_Taiwan_TC1           GACTCATTCAAAGAA--GAGCTgGACAAGTACTTCAAAAATCATAC-ATCACCAGATGTT
Bat_coronavirus_(BtCoV/273/2005)      GACTCATTtAAAcAA--GAGCTAGACAAGTACTTCAAAAATCATAC-ATCACCtGATGTT
BtRf-BetaCoV/HeB2013                  GACTCATTtAAAcAA--GAGCTAGAtAAGTACTTCAAAAATCATAC-ATCACCtGATGTT

SARS_CORONAVIRUS                      tATgTTaGtagt------tGtAcTAACaacTtTGTt-------------AAGAAAagGct
Severe_acute_respiratory_syndrom      GATtTaGGtGACATcTCtGGCATTAAtGCTTCaGTtGTaAACATTCAAAAAGAAATTGAC
SARS_coronavirus_civet007             GATCTTGGCGACATTTCAGGCATTAACGCTTCTGTCGTCAACATTCAAgAAGAAATTGAC
SARS_coronavirus_GZ50                 GATCTTGGCGACATTTCAGGCATTAACGCTTCTGTCGTCAACATTCAAAAAGAAATTGAC
SARS_coronavirus_Taiwan_TC1           GATCTTGGCGACATTTCAGGCATTAACGCTTCTGTCGTCAACATTCAAAAAGAAATTGAC
Bat_coronavirus_(BtCoV/273/2005)      GATCTTGGCGAtATTTCAGGCATTAACGCTTCTGTCGTCgAtATTCAAAAAGAAATTGAC
BtRf-BetaCoV/HeB2013                  GATCTTGGCGACATTTCAGGCATcAAtGCTTCTGTCGTCgAtATTCAgAAAGAAATTGAC

SARS_CORONAVIRUS                      tagCatAATtA----GCTAtAgtATcccAAgGgAc---------ACtaTtAAcAgCaGct
Severe_acute_respiratory_syndrom      CGCCTCAATGAGGTtGCcA-AgAATTTAAATGAATCtCTCATcGAtCTcCAAGAACTtGG
SARS_coronavirus_civet007             CGCCTCAATGAGGTCGCTA-AAAATTTAAATGAATCACTCATcGACCTTCAAGAAtTGGG
SARS_coronavirus_GZ50                 CGCCTCAATGAGGTCGCTA-AAAATTTAAATGAATCACTCATTGACCTTCAAGAAtTGGG
SARS_coronavirus_Taiwan_TC1           CGCCTCAATGAGGTCGCTA-AAAATTTAAATGAATCACTCATTGACCTTCAAGAAtTGGG
Bat_coronavirus_(BtCoV/273/2005)      CGCCTCAATGAGGTCGCcA-AAAATTTAAATGAATCACTCATTGACCTTCAAGAACTtGG
BtRf-BetaCoV/HeB2013                  CGCCTCAATGAGGTtGCcA-AAAATTTAAATGAATCACTCATTGACCTTCAAGAACTtGG

SARS_CORONAVIRUS                      AAAccATGAGtAgcaagggttttcAaAcctAATactCTaGaTAattcaTTaGGtTt--CT
Severe_acute_respiratory_syndrom      AAAgTATGAGCAg----------TATATaAAATGGCCaTGGTA---caTTTGGCTaGGtT
SARS_coronavirus_civet007             AAAATATGAGCAA----------TATATTAAATGGCCTTGGTA---TGTTTGGCTCGGCT
SARS_coronavirus_GZ50                 AAAATATGAGCAA----------TATATTAAATGGCCTTGGTA---TGTTTGGCTCGGCT
SARS_coronavirus_Taiwan_TC1           AAAATATGAGCAA----------TATATTAAATGGCCTTGGTA---TGTTTGGCTCGGCT
Bat_coronavirus_(BtCoV/273/2005)      cAAATATGAGCAA----------TATATTAAATGGCCTTGGTA---TGTcTGGCTtGGCT
BtRf-BetaCoV/HeB2013                  cAAATATGAGCAA----------TATATTAAATGGCCTTGGTA---TGTcTGGCTtGGCT

SARS_CORONAVIRUS                      TaATAGtaaGACTAg----aATtGTC---------------------TaCATaAgcAGcc
Severe_acute_respiratory_syndrom      TtATAGCTGGctTgATTGCCATAGTaATGGTgACAATtaTGCTTTGcTGtATGACcAGTT
SARS_coronavirus_civet007             TCATtGCTGGACTAATTGCCATcGTCATGGTTACAATCTTGCTTTGTTGCATGACTAGTT
SARS_coronavirus_GZ50                 TCATtGCTGGACTAATTGCCATcGTCATGGTTACAATCTTGCTTTGTTGCATGACTAGTT
SARS_coronavirus_Taiwan_TC1           TCATtGCTGGACTAATTGCCATcGTCATGGTTACAATCTTGCTTTGTTGCATGACTAGTT
Bat_coronavirus_(BtCoV/273/2005)      TtATAGCaGGgtTAgTaGgatTAtTCATGGccAtcATtcTtCTTTGTTaCtTtACTAGcT
BtRf-BetaCoV/HeB2013                  TtATAGCaGGgtTAgTaGgatTAtTtATGGccAtcATtcTtCTTTGTTaCtTtACTAGcT

SARS_CORONAVIRUS                      aTTagAtcTGtgT---GGcCAacctCTtcTGTaaTTtTTaaactattattTGCtgGTTTa
Severe_acute_respiratory_syndrom      GcTGtAGTTGtCTCAAGGGCtgtTGtTCTTGTGGaTCcTG---------CTGCAAaTTTG
SARS_coronavirus_civet007             GTTGCAGTTGCCTCAAGGGtgCATGCTCTTGTGGTTCTTG---------CTGCAAGTTTG
SARS_coronavirus_GZ50                 GTTGCAGTTGCCTCAAGGGtgCATGCTCTTGTGGTTCTTG---------CTGCAAGTTTG
SARS_coronavirus_Taiwan_TC1           GTTGCAGTTGCCTCAAGGGtgCATGCTCTTGTGGTTCTTG---------CTGCAAGTTTG
Bat_coronavirus_(BtCoV/273/2005)      GcTGCAGcTGCtgtAAaGGCAtgTGCTCcTGTGGTTCTTG---------CTGCAgaTTTG
BtRf-BetaCoV/HeB2013                  GcTGtAGcTGCtgtAAaGGCAtgTGCTCcTGTGGTTCTTG---------CTGCAgaTTTG

SARS_CORONAVIRUS                      AgtAtaATGtCTCctA--CAacTtcggtAGtTtTCAcATTACAcT---CAagAACGtctT
Severe_acute_respiratory_syndrom      ATGAAGAcGACTCTGAGCCAGTgCTCAAAGGaGTCAAATTACATTACACATAAACGAACT
SARS_coronavirus_civet007             ATGAgGATGACTCTGAGCCAGTTCTCAAgGGTGTCAAATTACATTACACATAAACGAACT
SARS_coronavirus_GZ50                 ATGAgGATGACTCTGAGCCAGTTCTCAAgGGTGTCAAATTACATTACACATAAACGAACT
SARS_coronavirus_Taiwan_TC1           ATGAgGATGACTCTGAGCCAGTTCTCAAgGGTGTCAAATTACATTACACATAAACGAACT
Bat_coronavirus_(BtCoV/273/2005)      ATGAAGAcGACTCTGAGCCAGTgCTCAAAGGaGTCAAATTACATTACACATAAACGAACT
BtRf-BetaCoV/HeB2013                  ATGAAGATGACTCTGAGCCAGTgCTCAAAGGaGTCAAATTACATTACACATAAACGAACT

SARS_CORONAVIRUS                      T-cTGtA-----TggTagGAtTTTcCACTacTtctTCAgagACTGgttttAgAtCttcgC
Severe_acute_respiratory_syndrom      T-ATGGATTTGTTTATGAGAATcTTCACaaTTGGAaCtgTaACTt----tgaAGC----a
SARS_coronavirus_civet007             T-ATGGATTTGTTTATGAGAATTTTtACTCTTGGATCAATTACTG----CACAGC----C
SARS_coronavirus_GZ50                 T-ATGGATTTGTTTATGAGAtTTTTtACTCTTGGATCAATTACTG----CACAGC----C
SARS_coronavirus_Taiwan_TC1           T-ATGGATTTGTTTATGAGAtTTTTtACTCTTGGATCAATTACTG----CACAGC----C
Bat_coronavirus_(BtCoV/273/2005)      TaATGGATTTGTTTATGAGtATTTTCACaCTTGGATCAATcACac----gtCAaC----C
BtRf-BetaCoV/HeB2013                  T-ATGGATTTGTTTATGAGtATTTTCACaCTTGGATCAATTACac----gtCAaC----C

SARS_CORONAVIRUS                      AGGcAAgATT----ATcCaTtcCCTGCgcGTcCTcT---------------GActtCagT
Severe_acute_respiratory_syndrom      AGGtgAAATcaAggATGCTaCTCCTtCAgaTttTGTTCgcGCTACtGCAACGATACCGaT
SARS_coronavirus_civet007             AGtAAAAATTGACAATGCTTCTCaTGCAAGTACTGTTCgTGCTACAGCAACGATACCGCT
SARS_coronavirus_GZ50                 AGtAAAAATTGACAATGCTTCTCCTGCAAGTACTGTTCATGCTACAGCAACGATACCGCT
SARS_coronavirus_Taiwan_TC1           AGtAAAAATTGACAATGCTTCTCCTGCAAGTACTGTTCATGCTACAGCAACGATACCGCT
Bat_coronavirus_(BtCoV/273/2005)      AaGtAAgATTGAaAATGCTTtTCtTGCAAGTACTGTTCATGCTACtGCAACGATACCGCT
BtRf-BetaCoV/HeB2013                  AaGtAAgATTGAaAATGCTTtTCtTGCAAGTACTGTTCATGCTACtGCAACGATACCGCT

SARS_CORONAVIRUS                      ACA--------------TCaaAcGaaTT-----TGatGTTtCA------aCTGgTTTT--
Severe_acute_respiratory_syndrom      ACAAGCCTCACTCCCTTTCGGATGGCTTaTTgTTGGCGTTGCACTTCTTGCTGTTTTTCA
SARS_coronavirus_civet007             ACAAGCCTCACTCCCTTTCGGATGGCTTGTTATTGGCGTTGCAtTTCTTGCTGTTTTTCA
SARS_coronavirus_GZ50                 ACAAGCCTCACTCCCTTTCGGATGGCTTGTTATTGGCGTTGCAtTTCTTGCTGTTTTTCA
SARS_coronavirus_Taiwan_TC1           ACAAGCCTCACTCCCTTTCGGATGGCTTGTTATTGGCGTTGCAtTTCTTGCTGTTTTTCA
Bat_coronavirus_(BtCoV/273/2005)      ACAAGCCTCAtTCtCTTTCcGATGGCTTGTTATTGGCGTTGCACTTCTTGCTGTTTTTCA
BtRf-BetaCoV/HeB2013                  ACAAGCCTCACTCtCTTTCcGATGGCTTGTTgcTGGCGTTGCACTTCTTGCTGTTTTTCA

SARS_CORONAVIRUS                      --GtGCTcCaAAgAcAA----------------------------CgTATACAccaGGtA
Severe_acute_respiratory_syndrom      GAGCGCTtCCAAAATcATaaCcCTCAAaAAgAGATGGCAaCTAGCaCTcTcCA-AGGGtg
SARS_coronavirus_civet007             GAGCGCTACCAAAATAATTGCGCTCAATAAAAGATGGCAGCTAGCCCTtTAtA-AGGGCt
SARS_coronavirus_GZ50                 GAGCGCTACCAAAATAATTGCGCTCAATAAAAGATGGCAGCTAGCCCTtTAtA-AGGGCt
SARS_coronavirus_Taiwan_TC1           GAGCGCTACCAAAATAATTGCGCTCAATAAAAGATGGCAGCTAGCCCTtTAtA-AGGGCt
Bat_coronavirus_(BtCoV/273/2005)      aAGCGCTtCCAAAgTAATTGCGCTtcATAAgAagTGGCAGCTtGCCtTATACA-AaGGCA
BtRf-BetaCoV/HeB2013                  aAGCGCTtCCAAAgTgATTGCGCTtcATAAgAGgTGGCAaCTtGCCtTAcACA-AaGGCA

SARS_CORONAVIRUS                      TttgGTTtATacGtggCTT--------TATTaGTTgCA--TTgTTaACATgc--------
Severe_acute_respiratory_syndrom      TtCAcTTtgTTTGCAACTTgCTGtTGtTgTTTGTaACAgTTTAcTCACAcCTTTTGCTcG
SARS_coronavirus_civet007             TCCAGTTCATTaGCAAtTTACTGCTGCTATTTGTTACcATcTATTCACATCTTTTGCTTG
SARS_coronavirus_GZ50                 TCCAGTTCATTTGCAAtTTACTGCaGCTATTTGTTACcATcTATTCACATCTTTTGCTTG
SARS_coronavirus_Taiwan_TC1           TCCAGTTCATTTGCAAtTTACTGCTGCTATTTGTTACcATcTATTCACATCTTTTGCTTG
Bat_coronavirus_(BtCoV/273/2005)      TCCAaTTagTTTGtAACTTgCTGCTaCTcTTTGTgACAATTTATTCACATtTTcTaCTTt
BtRf-BetaCoV/HeB2013                  TCCAaTTtgTTTGCAACTTgCTGCTaCTcTTTGTgACAATTTATTCACATCTTcTaCTTt

SARS_CORONAVIRUS                      ------CAaaCA----------------aTAggTtTATGtaacaATtTAgcTcCTttctT
Severe_acute_respiratory_syndrom      TtGCTGCtGGCcTtGAaGCcCctTTTcTcTAtCTtTATGCtTTagTcTAcTTctTgCAga
SARS_coronavirus_civet007             TCGCTGCAGGtATGGAGGCGCAATTTTTGTACCTCTATGCCTTGATATATTTTCTACAAT
SARS_coronavirus_GZ50                 TCGCTGCAGGtATGGAGGCGCAATTTTTGTACCTCTATGCCTTGATATATTTTCTACAAT
SARS_coronavirus_Taiwan_TC1           TCGCTGCAGGtATGGAGGCGCAATTTTTGTACCTCTATGCCTTGATATATTTTCTACAAT
Bat_coronavirus_(BtCoV/273/2005)      TaGCTGCtGGCATtGAGGtaCAATTTTTGTACaTCTATGCtTTGATtTATaTTCTgCAAa
BtRf-BetaCoV/HeB2013                  TaGCTGCtGGCATGGAGGtaCAATTTTTGTACaTCTATGCtTTGATtTATaTTCTgCAAa

SARS_CORONAVIRUS                      aaAagAggGTgTGTAG-------------TGTTtGgTTgGTTtG--GTaCAAgatC---A
Severe_acute_respiratory_syndrom      GtATAAACtTtgtaAGAATaATaATGAGgctTTGGCTTTGcTGGAAaTGCcgtTCCAAaA
SARS_coronavirus_civet007             GCATcAACGcAgGTAGAATTATTATGAGATGTTGGCTTTGTTGGAAGTGCAAATCCAAGA
SARS_coronavirus_GZ50                 GCATcAACGcATGTAGAATTATTATGAGATGTTGGCTTTGTTGGAAGTGCAAATCCAAGA
SARS_coronavirus_Taiwan_TC1           GCATcAACGcATGTAGAATTATTATGAGATGTTGGCTTTGTTGGAAGTGCAAATCCAAGA
Bat_coronavirus_(BtCoV/273/2005)      tttTAAgCtTtTGcAGAtTTgTcATGAGATGcTGGCTTTGTTGGAAGTGCAAATCCAAGA
BtRf-BetaCoV/HeB2013                  cttTAAgttTtTGcAGAtTTATcATGAGATGcTGGCTTTGTTGGAAGTGCAAATCCAAGA

SARS_CORONAVIRUS                      AttggTTgCTcTgTGAa----------------------------------ATaAgaAtT
Severe_acute_respiratory_syndrom      ACCCATTACTTTATGATGCCAACTAtTTTcTTTGCTGGCAtACtaATtgtTAcGACTAtT
SARS_coronavirus_civet007             ACCCATTACTTTATGAaGCCAACTACTTTGTTTGCTGGCACACACATAACTATGACTACT
SARS_coronavirus_GZ50                 ACCCATTACTTTATGATGCCAACTACTTTGTTTGCTGGCACACACATAACTATGACTACT
SARS_coronavirus_Taiwan_TC1           ACCCATTACTTTATGATGCCAACTACTTTGTTTGCTGGCACACACATAACTATGACTACT
Bat_coronavirus_(BtCoV/273/2005)      AtCCATTAtTaTATGATGCCAACTACTTTGTTTGCTGGCAtACAtATAAtTATGACTACT
BtRf-BetaCoV/HeB2013                  AtCCATTAtTaTATGATGCCAACTACTTTGTTTGCTGGCAtACAtATAAtTATGACTACT

SARS_CORONAVIRUS                      GTcTttCtTATAAt--------------AATTGTC-caACTTAgGGTcA----ATTTCtg
Severe_acute_respiratory_syndrom      GTATACCtTAcAAtAGTGTaACttcTtCAATTGTCaTTACTTcAGGTGAtGGCAcaaCAA
SARS_coronavirus_civet007             GTATACCATATAACAGTGTCACAGATACAATTGTCGTTACTgAAGGTGACGGCATTTCAA
SARS_coronavirus_GZ50                 GTATACCATATAACAGTGTCACAGATACAATTGTCGTTACTgAAGGTGACGGCATTTCAA
SARS_coronavirus_Taiwan_TC1           GTATACCATATAACAGTGTCACAGATACAATTGTCGTTACTgAAGGTGACGGCATTTCAA
Bat_coronavirus_(BtCoV/273/2005)      GTATACCATAcAACAGTGTCACAGATACAATcGTCGTTACTTcAGGTGACGGCATTTCAA
BtRf-BetaCoV/HeB2013                  GTATACCATAcAACAGTGTCACAGATACAATcGTCGTTACTTcAGGTGACGGCATTTCAA

SARS_CORONAVIRUS                      tAC--------AAAcAAcACcAtCcAATTtaTaagTA----------------aCtGGTt
Severe_acute_respiratory_syndrom      gtCCtAtttctgAAcAtGACTACCAgATTGGTGGTTATaCTGAaaAatGGgAaTCtGGaG
SARS_coronavirus_civet007             CACCAAAACTCAAAGAAGACTACCAAATTGGTGGTTATTCTGAGGATAGGCACTCAGGTG
SARS_coronavirus_GZ50                 CACCAAAACTCAAAGAAGACTACCAAATTGGTGGTTATTCTGAGGATAGGCACTCAGGTG
SARS_coronavirus_Taiwan_TC1           CACCAAAACTCAAAGAAGACTACCAAATTGGTGGTTATTCTGAGGATAGGCACTCAGGTG
Bat_coronavirus_(BtCoV/273/2005)      CACCAgAACTCAAAGAAGACTACCAAATTGGTGGTTATTCTGAGGATtGGCACTCAGGTG
BtRf-BetaCoV/HeB2013                  CACCAgAACTCAAAGAAGACTACCAAATTGGTGGTTATTCTGAGGATtGGCAtTCAGGTG

SARS_CORONAVIRUS                      TTAtg------GTtGTTGT--gTaaCTgTTT-------------------------TCTt
Severe_acute_respiratory_syndrom      TaAAAGACTgTGTtGTatTACAcaGtTAcTTCACttcAGacTAtTACCAGCTgtAcTCaA
SARS_coronavirus_civet007             TTAAAGACTATGTCGTTGTACATGGCTATTTCACCGAAGTTTACTACCAGCTTGAGTCTA
SARS_coronavirus_GZ50                 TTAAAGACTATGTCGTTGTACATGGCTATTTCACCGAAGTTTACTACCAGCTTGAGTCTA
SARS_coronavirus_Taiwan_TC1           TTAAAGACTATGTCGTTGTACATGGCTATTTCACCGAAGTTTACTACCAGCTTGAGTCTA
Bat_coronavirus_(BtCoV/273/2005)      TTAAAGACTATGTCGTTGTACATGGCTATTTCACCGAAGTTcACTACCAGCTTGAGTCTA
BtRf-BetaCoV/HeB2013                  TTAAAGACTATGTCGTTGTACATGGCTATTTCACCGAAGTTcACTACCAGCTTGAGTCTA

SARS_CORONAVIRUS                      tgtAgA-------AaACAtccGTAaTaggAccttTgtATTCT--------gAggActTTG
Severe_acute_respiratory_syndrom      CtCAAtTgAgTACAGACACTGGTgTTGAAcATGtTACcTTCTTCATCTacAAtAAaaTTG
SARS_coronavirus_civet007             CACAAATTACTACAGACACTGGTATTGAAAATGCTACATTCTTCATCTTTAACAAGCTTG
SARS_coronavirus_GZ50                 CACAAATTACTACAGACACTGGTATTGAAAATGCTACATTCTTCATCTTTAACAAGCTTG
SARS_coronavirus_Taiwan_TC1           CACAAATTACTACAGACACTGGTATTGAAAATGCTACATTCTTCATCTTTAACAAGCTTG
Bat_coronavirus_(BtCoV/273/2005)      CACAAATTACTACAGACACTGGTATTcAAAAcGCTACATTCTTCATCTTTAACAAGCTTG
BtRf-BetaCoV/HeB2013                  CACAAATTACTACAGACACTGGTATTcAAAAcGCTACATTCTTCATCTTTAACAAGCTTG

SARS_CORONAVIRUS                      TaAgtaAagC---ACCGtcTaTGC-AATACA--------AaGttTCTTtAGaAGTTaT--
Severe_acute_respiratory_syndrom      TTgAtGAgCCtgaAgaacATGTcCAAATtCACACAATCGACGGtTCaTCcGGAGTTGTTA
SARS_coronavirus_civet007             TTAAAGACCC---ACCGAATGTGCAAATACACACAATCGACGGCTCTTCAGGAGTTGcTA
SARS_coronavirus_GZ50                 TTAAAGACCC---ACCGAATGTGCAAATACACACAATCGACGGCTCTTCAGGAGTTGcTA
SARS_coronavirus_Taiwan_TC1           TTAAAGACCC---ACCGAATGTGCAAATACACACAATCGACGGCTCTTCAGGAGTTGcTA
Bat_coronavirus_(BtCoV/273/2005)      TTAAgGAtCC---gCCGAATGTGCAAATACACACAATCGACGGCTCTTCAGGAGTTGTaA
BtRf-BetaCoV/HeB2013                  TTAAAGgtCC---gCCGAATGTGCAAATACACACAATCGACGGCTCTTCAGGAGTTGTaA

SARS_CORONAVIRUS                      --------ATG-------TTTATagTGAcCacACtGgtaAtTACcAGtGTaC--TcactA
Severe_acute_respiratory_syndrom      ATCCAGtAATGGAaCCAATTTATGATGAaCCGAC-GACGACTACTAGCGTGCCTTTGTAA
SARS_coronavirus_civet007             ATCCAGCAAcGGATCCAATTTATGATGAGCCGAC-GACGACTACTAGCGTGCCTTTGTAA
SARS_coronavirus_GZ50                 ATCCAGCAATGGATCCAATTTATGATGAGCCGAC-GACGACTACTAGCGTGCCTTTGTAA
SARS_coronavirus_Taiwan_TC1           ATCCAGCAATGGATCCAATTTATGATGAGCCGAC-GACGACTACTAGCGTGCCTTTGTAA
Bat_coronavirus_(BtCoV/273/2005)      ATCCAGCAATGGAcCCAATTTATGATGAGCCGAC-GACGACTACTAGCGTGCCTTTGTAA
BtRf-BetaCoV/HeB2013                  ATCCAGCAATGGAcCCAATTTATGATGAGCCGAC-GACGACTACTAGCGTGCCTTTGTAA

SARS_CORONAVIRUS                      GCgaAgaAgAaTcAccAgGAgtcaAataACTtcTatGT-------aAAgCAaGTAa----
Severe_acute_respiratory_syndrom      GCACAAGctgaTGAGTACGAACTTATGTACTCATTCGTTTCGGAAGAgACAGGTACGTTA
SARS_coronavirus_civet007             GCACAAGAAAGTGAGTACGAACTTATGTACTCATTCGTTTCGGAAGAAACAGGTACGTTA
SARS_coronavirus_GZ50                 GCACAAGAAAGTGAGTACGAACTTATGTACTCATTCGTTTCGGAAGAAACAGGTACGTTA
SARS_coronavirus_Taiwan_TC1           GCACAAGAAAGTGAGTACGAACTTATGTACTCATTCGTTTCGGAAGAAACAGGTACGTTA
Bat_coronavirus_(BtCoV/273/2005)      GCACAAGAAAGTGAGTACGAACTTATGTACTCATTCGTTTCGGAAGAAACAGGTACGTTA
BtRf-BetaCoV/HeB2013                  GCACAAGAAAGTGAGTACGAACTTATGTACTCATTCGTTTCGGAAGAAACAGGTACGTTA

SARS_CORONAVIRUS                      --AGTTtgaAaCcTA------------------GTGaTgTTaaTaCc-----tAtTgGCa
Severe_acute_respiratory_syndrom      ATAGTTAATAGCGTACTTCTTTTTCTTGCTTTCGTGGTATTCTTGCTAGTtACACTAGCC
SARS_coronavirus_civet007             ATAGTTAATAGCGTACTTCTTTTTCTTGCTTTCGTGGTATTCTTGCTAGTCACACTAGCC
SARS_coronavirus_GZ50                 ATAGTTAATAGCGTACTTCTTTTTCTTGCTTTCGTGGTATTCTTGCTAGTCACACTAGCC
SARS_coronavirus_Taiwan_TC1           ATAGTTAATAGCGTACTTCTTTTTCTTGCTTTCGTGGTATTCTTGCTAGTCACACTAGCC
Bat_coronavirus_(BtCoV/273/2005)      ATAGTTAATAGCGTACTTCTTTTTgTTGCTTTCGTGGTATTCTTGCTAGTtACACTAGCC
BtRf-BetaCoV/HeB2013                  ATAGTTAATAGCGTACTTCTTTTTgTTGCTTTCGTGGTATTCTTGCTAGTtACACTAGCC

SARS_CORONAVIRUS                      AatCTacCaatGgTTC-----------TAaaGCcGaAAaAcccTgA--GgGAGaTcAcgc
Severe_acute_respiratory_syndrom      ATCCTTACTGCGCTTCGATTGTGTGCGTACTGCTGCAATATTGTTAACGTGAGTcTt---
SARS_coronavirus_civet007             ATCCTTACTGCGCTTCGATTGTGTGCGTACTGCTGCAATATTGTTAACGTGAGTTTA---
SARS_coronavirus_GZ50                 ATCCTTACTGCGCTTCGATTGTGTGCGTACTGCTGCAATATTGTTAACGTGAGTTTA---
SARS_coronavirus_Taiwan_TC1           ATCCTTACTGCGCTTCGATTGTGTGCGTACTGCTGCAATATTGTTAACGTGAGTTTA---
Bat_coronavirus_(BtCoV/273/2005)      ATCCTTACTGCGCTTCGATTGTGTGCGTACTGCTGCAATATTGTTAACGTGAGTTTA---
BtRf-BetaCoV/HeB2013                  ATCCTTACTGCGCTTCGATTGTGTGCGTACTGCTGCAATATTGTTAACGTGAGTTTA---

SARS_CORONAVIRUS                      actAAAttAA-----------TAggCGtGTGcTtAgAATaTa-----TTtTaAAatAacc
Severe_acute_respiratory_syndrom      GTAAAACCttCttTTTACGTtTACTCtCGTGTTAAAAATCTGAAtTCTTCTa---GAGTT
SARS_coronavirus_civet007             GTAAAACCAACGGTTTACGTCTACTCGCGTGTTAAAAATCTGAACTCTTCTGAAGGAGTT
SARS_coronavirus_GZ50                 GTAAAACCAACGGTTTACGTCTACTCGCGTGTTAAAAATCTGAACTCTTCTGAAGGAGTT
SARS_coronavirus_Taiwan_TC1           GTAAAACCAACGGTTTACGTCTACTCGCGTGTTAAAAATCTGAACTCTTCTGAAGGAGTT
Bat_coronavirus_(BtCoV/273/2005)      GTAAAACCAACaGTTTACGTtTACTCGCGTGTTAAAAATCTGAACTCcTCTGAttGtGTT
BtRf-BetaCoV/HeB2013                  GTAAAACCAACaGTTTACGTtTACTCGCGTGTTAAAAATCTGAACTCTTCTGAttGtGTT

SARS_CORONAVIRUS                      atcaATaTTCT--TaaAcACaAAtTccCTAagA------------TtTTTGaAA------
Severe_acute_respiratory_syndrom      CCTGATCTTCTGGTCTAAACGAACTAAaTATTAtatTagTTtTTCTGTTTGGAACTTTAA
SARS_coronavirus_civet007             CCTGATCTTCTGGTCTAAACGAACTAACTATTA---TTATTATTCTGTTTGGAACTTTAA
SARS_coronavirus_GZ50                 CCTGATCTTCTGGTCTAAACGAACTAACTATTA---TTATTATTCTGTTTGGAACTTTAA
SARS_coronavirus_Taiwan_TC1           CCTGATCTTCTGGTCTAAACGAACTAACTATTA---TTATTATTCTGTTTGGAACTTTAA
Bat_coronavirus_(BtCoV/273/2005)      CCTGATCTTCTGGTCTAAACGAACTAACTATTA-------TtTTCTGTTTGGAACTTTAA
BtRf-BetaCoV/HeB2013                  CCTGATCTTCTGGTCTAAACGAACTAACTA------TTATTATTCTGTTTGGAACTTTAA

SARS_CORONAVIRUS                      ------TTAcCcTGt------------------TTtCCtTcaAGGtcCaTAAgAAAaggC
Severe_acute_respiratory_syndrom      ttTTa---gcCATGGCAGAttcCAACGGTACTATTACCGTTGAaGAGCTTAAAAAgCTCC
SARS_coronavirus_civet007             CATTGCTTATCATGGCAGA---CAACaGTACTATTACCGTTGAGGAGCTTAAgcAACTCC
SARS_coronavirus_GZ50                 CATTGCTTATCATGGCAGA---CAACGGTACTATTACCGTTGAGGAGCTTAAAcAACTCC
SARS_coronavirus_Taiwan_TC1           CATTGCTTATCATGGCAGA---CAACGGTACTATTACCGTTGAGGAGCTTAAAcAACTCC
Bat_coronavirus_(BtCoV/273/2005)      CATTGCTTATCATGGCtGA---gAACGGaACcATTtCtGTTGAGGAGCTTAAAAgACTCC
BtRf-BetaCoV/HeB2013                  CATTGCTTATCATGGCtGA---gAACGGaACcATTtCtGTTGAGGAGCTTAAAAgACTCC

SARS_CORONAVIRUS                      TGa------GagACaTAtTcAaAaG-----------------------------TgCAAT
Severe_acute_respiratory_syndrom      TtGAACAATGGAACCTAGTAATAGGTTTCCTATTCCTtaCaTGGATTtgtcTtCTACAAT
SARS_coronavirus_civet007             TGGAACAATGGAACCTAGTAATAGGTTTCCTATTCCTAGCCTGGATTATGTTACTACAAT
SARS_coronavirus_GZ50                 TGGAACAATGGAACCTAGTAATAGGTTTCCTATTCCTAGCCTGGATTATGTTACTACAAT
SARS_coronavirus_Taiwan_TC1           TGGAACAATGGAACCTAGTAATAGGTTTCCTATgCCTAGCCTGGATTATGTTACTACAAT
Bat_coronavirus_(BtCoV/273/2005)      TGGAACAATGGAACCTAGTAATAGGcTTCCTcTTCCTcGCCTGGATTATGTTAtTACAAT
BtRf-BetaCoV/HeB2013                  TGGAACAATGGAACCTAGTAATAGGcTTCCTtTTCCTcGCCTGGATTATGTTAtTACAAT

SARS_CORONAVIRUS                      -----TATTCgcActaGAAtAaacTcT-----------gAaCTcacTTTCCaTCcaaCTt
Severe_acute_respiratory_syndrom      TTGCCTATgCcAAcaGGAAtAGGTTTTTGTAtATAATtAAGtTaaTTTTCC-TCTGGCTg
SARS_coronavirus_civet007             TTGCCTATTCTAATCGGAACAGGTTTTTGTACATAATAAAGCTTGTTTTCC-TCTGGCTC
SARS_coronavirus_GZ50                 TTGCCTATTCTAATCGGAACAGGTTTTTGTACATAATAAAGCTTGTTTTCC-TCTGGCTC
SARS_coronavirus_Taiwan_TC1           TTGCCTATTCTAATCGGAACAGGTTTTTGTACATAATAAAGCTTGTTTTCC-TCTGGCTC
Bat_coronavirus_(BtCoV/273/2005)      TTGCCTATTCTAATCGGAACAGGcTTTTGTACATAATAAAGCTTGTcTTCC-TCTGGCTC
BtRf-BetaCoV/HeB2013                  TTGCCTATTCTAATCGGAACAGGcTTTTGTACATAATAAAGCTTGTcTTCC-TCTGGCTC

SARS_CORONAVIRUS                      TTG----------------------TTGTttTTGtgGtaaTaaACAcccaaAAaTGGaTc
Severe_acute_respiratory_syndrom      TTaTGGCCAGTAACttTaGCTTGtTTTGTGCTTGCTGCTGTtTACAGAATaAATTGGaTc
SARS_coronavirus_civet007             TTGTGGCCAGTAACACTTGCTTGCTTTGTGCTTGCTGCTGTCTACAGAATTAATTGGGTG
SARS_coronavirus_GZ50                 TTGTGGCCAGTAACACTTGCTTGtTTTGTGCTTGCTGCTGTCTACAGAATTAATTGGGTG
SARS_coronavirus_Taiwan_TC1           TTGTGGCCAGTAACACTTGCTTGtTTTGTGCTTGCTGCTGTCTACAGAATTAATTGGGTG
Bat_coronavirus_(BtCoV/273/2005)      TTGTGGCCAGTAACACTTGCTTGCTTTGTGCTTGCTGCTGTtTACAGAATTAATTGGGTG
BtRf-BetaCoV/HeB2013                  TTGTGGCCAGTAACACTTGCTTGCTTTGTGCTTGCTGCTGTtTACAGAATTAATTGGGTG

SARS_CORONAVIRUS                      AtT-aCaaaATTGaaAT--------------TcacAGaCTTtA------aTAaCaACaTT
Severe_acute_respiratory_syndrom      ACcGGtGGaATTGCtATcGCAATGGCTTGTcTTGTAGGCTTGATGTGGCTcAGCTAC-TT
SARS_coronavirus_civet007             ACTGGCGGGATTGCGATTGCAATGGCTTGTATTGTAGGCTTGATGTGGCTTAGCTAC-TT
SARS_coronavirus_GZ50                 ACTGGCGGGATTGCGATTGCAATGGCTTGTATTGTAGGCTTGATGTGGCTTAGCTAC-TT
SARS_coronavirus_Taiwan_TC1           ACTGGCGGGATTGCGATTGCAATGGCTTGTATTGTAGGCTTGATGTGGCTTAGCTAC-TT
Bat_coronavirus_(BtCoV/273/2005)      ACTGGCGGtATTGCGATTGCAATGGCTTGcATcGTAGGCTTGATGTGGCTTAGCTAC-TT
BtRf-BetaCoV/HeB2013                  ACTGGCGGtATTGCGATTGCAATGGCTTGcATcGTAGGCTTGATGTGGCTTAGCTAC-TT

SARS_CORONAVIRUS                      aGTaGCgTtaTTaAcaataagtaggGaCTGggTctTCGaAtC----tAAaGTaGT-----
Severe_acute_respiratory_syndrom      CaTTGCTTCtTTCA-----------GaCTGTTTGCgCGTACgCGtTCcATGTGGTCATTC
SARS_coronavirus_civet007             CGTTGCTTCCTTCA-----------GGCTGTTTGCTCGTACCCGCTCAATGTGGTCATTC
SARS_coronavirus_GZ50                 CGTTGCTTCCTTCA-----------GGCTGTTTGCTCGTACCCGCTCAATGTGGTCATTC
SARS_coronavirus_Taiwan_TC1           CGTTGCTTCCTTCA-----------GGCTGTTTGCTCGTACCCGCTCAATGTGGTCATTC
Bat_coronavirus_(BtCoV/273/2005)      CGTTGCTTCCTTCA-----------GGCTGTTTGCTCGTACCCGCTCAATGTGGTCATTC
BtRf-BetaCoV/HeB2013                  tGTTGCTTCCTTCA-----------GGCTGTTTGCTCGTACCCGCTCAATGTGGTCATTC

SARS_CORONAVIRUS                      -ACCaAaAAtCcA----------------GCCTCTt---------ATTaTG-ttAGACtt
Severe_acute_respiratory_syndrom      AAtCCAGAAACtAACATTCTTCTCAAcGTGCCaCTCCatGGcACtATTcTGACCAGACCG
SARS_coronavirus_civet007             AACCCAGAAACAAACATTCTTCTCAATGTGCCTCTCCGGGGGACAATTGTGACCAGACCG
SARS_coronavirus_GZ50                 AACCCAGAAACAAACATTCTTCTCAATGTGCCTCTCCGGGGGACAATTGTGACCAGACCG
SARS_coronavirus_Taiwan_TC1           AACCCAGAAACAAACATTCTTCTCAATGTGCCTCTCCGGGGGACAATTGTGACCAGACCG
Bat_coronavirus_(BtCoV/273/2005)      AACCCAGAAACAAACATTCTTCTCAATGTGCCTCTtCGaGGGACAATTGTaACCAGACCG
BtRf-BetaCoV/HeB2013                  AACCCAGAAACAAACATTCTTCTCAATGTGCCTCTtCGaGGGACAATTGTaACCAGACCG

SARS_CORONAVIRUS                      CTCAgtGgAAGcaAAaTaaaCAcc---------ATCATT-------------aAATGGta
Severe_acute_respiratory_syndrom      CTtcTaGAAAGTGAACTcGTaATcGGaGCTGTGATCcTTCGTGGaCAtCTtCGtATtGCt
SARS_coronavirus_civet007             CTCATGGAAAGTGAACTTGTCATTGGTGCTGTGATCATTCGTGGTCACtTGCGAATGGCC
SARS_coronavirus_GZ50                 CTCATGGAAAGTGAACTTGTCATTGGTGCTGTGATCATTCGTGGTCACtTGCGAATGGCC
SARS_coronavirus_Taiwan_TC1           CTCATGGAAAGTGAACTTGTCATTGGTGCTGTGATCATTCGTGGTCACtTGCGAATGGCC
Bat_coronavirus_(BtCoV/273/2005)      CTCATGGAAAGTGAACTTGTCATTGGcGCTGTGATCATTCGTGGTCACCTGCGAATGGCt
BtRf-BetaCoV/HeB2013                  CTCATGGAAAGTGAACTTGTCATTGGcGCTGTGATCATTCGTGGTCACCTGCGAATGGCt

SARS_CORONAVIRUS                      GGACA-------------------------GggtTatCAAA-------------------
Severe_acute_respiratory_syndrom      GGACACcatCTAGGaCGCTGTGACATcAAGGACCTGCCtAAAGAaATCACTGTtGCTACA
SARS_coronavirus_civet007             GGACACTCCCTAGGGCGCTGTGACATTAAGGACCTGCCAAAAGAGATCACTGTGGCTACA
SARS_coronavirus_GZ50                 GGACACTCCCTAGGGCGCTGTGACATTAAGGACCTGCCAAAAGAGATCACTGTGGCTACA
SARS_coronavirus_Taiwan_TC1           GGACACTCCCTAGGGCGCTGTGACATTAAGGACCTGCCAAAAGAGATCACTGTGGCTACA
Bat_coronavirus_(BtCoV/273/2005)      GGACACTCCCTAGGGCGCTGTGAtATTAAGGACCTGCCAAAgGAGATCACTGTGGCTACA
BtRf-BetaCoV/HeB2013                  GGACACTCCCTAGGGCGCTGTGAtATTAAGGACCTGCCAAAgGAGATCACTGTGGCTACg

SARS_CORONAVIRUS                      ----------ccTCTTAgTACcAtTg------GTCcCAGagaCaTGTAtaGCAtgGAacC
Severe_acute_respiratory_syndrom      TCACGAACGCTTTCTTATTACAAATTgGGAGCtTCGCAG---CGTGTA-GcaggTGAcTC
SARS_coronavirus_civet007             TCACGAACGCTTTCTTATTACAAATTAGGAGCGTCGCAG---CGTGTA-GGCACTGATTC
SARS_coronavirus_GZ50                 TCACGAACGCTTTCTTATTACAAATTAGGAGCGTCGCAG---CGTGTA-GGCACTGATTC
SARS_coronavirus_Taiwan_TC1           TCACGAACGCTTTCTTATTACAAATTAGGAGCGTCGCAG---CGTGTA-GGCACTGATTC
Bat_coronavirus_(BtCoV/273/2005)      TCACGAACGCTTTCTTATTACAAATTAGGAGCGTCGCAG---CGTGTA-GGCACTGATTC
BtRf-BetaCoV/HeB2013                  TCACGAACGCTTTCTTATTACAAATTAGGAGCGTCGCAG---CGTGTA-GGCACTGATTC

SARS_CORONAVIRUS                      AaGT------------AAC---------ATTGGAAAagA-AAggTAAgaACA--------
Severe_acute_respiratory_syndrom      AGGTTTTGCTGCATACAgtCGCTACaGgATTGGcAACTATAAATTAAACACAGACCAttC
SARS_coronavirus_civet007             AGGTTTTGCTGCATACAACCGCTACCGTATTGGAAACTATAAATTAAAtACAGACCACGC
SARS_coronavirus_GZ50                 AGGTTTTGCTGCATACAACCGCTACCGTATTGGAAACTATAAATTAAAtACAGACCACGC
SARS_coronavirus_Taiwan_TC1           AGGTTTTGCTGCATACAACCGCTACCGTATTGGAAACTATAAATTAAAtACAGACCACGC
Bat_coronavirus_(BtCoV/273/2005)      AGGTTTTGCTGCATACAACCGCTACCGTATTGGAAACTAcAAATTAAACACAGACCACtC
BtRf-BetaCoV/HeB2013                  AGGTTTTGCTGCATACAACCGCTACCGTATTGGAAACTAcAAATTAAACACAGACCACtC

SARS_CORONAVIRUS                      -------------AgTccTGagTTGaatGTAaAactgagGAtctgAaAacTTTtAgCTTG
Severe_acute_respiratory_syndrom      CaGTAGCAgtGACAATATTGCTTTGCTtGTACAGTAAGTGACAACAGATGTTTCATCTcG
SARS_coronavirus_civet007             CGGTAGCAACGACAATATTGCTTTGCTAGTACAGTAAGTGACAACAGATGTTTCATCTTG
SARS_coronavirus_GZ50                 CGGTAGCAACGACAATATTGCTTTGCTAGTACAGTAAGTGACAACAGATGTTTCATCTTG
SARS_coronavirus_Taiwan_TC1           CGGTAGCAACGACAATATTGCTTTGCTAGTACAGTAAGTGACAACAGATGTTTCATCTTG
Bat_coronavirus_(BtCoV/273/2005)      tGGTAGCAACGACAATATTGCTTTGCTAGTACAGTAAGTGACAACAGATGTTTCATCTcG
BtRf-BetaCoV/HeB2013                  tGGTAGCAACGACAATATTGCTTTGCTAGTACAGTAAGTGACAACAGATGTTTCATCTcG

SARS_CORONAVIRUS                      TgGgtTTaCAa---ACAAT----ttGATAcTtATaAcCtcTg-GAacACTTTtAcaA---
Severe_acute_respiratory_syndrom      TTGACTTtCAGGTTACtATAGCAGAGATATTacTaATtATTATGAGGACTTTtAaagTTt
SARS_coronavirus_civet007             TTGACTTCCAGGTTACAATAGCAGAGATATTGATTATCATTATGAGGACTTTCAGGATTG
SARS_coronavirus_GZ50                 TTGACTTCCAGGTTACAATAGCAGAGATATTGATTATCATTATGAGGACTTTCAGGATTG
SARS_coronavirus_Taiwan_TC1           TTGACTTCCAGGTTACAATAGCAGAGATATTGATTATCATTATGAGGACTTTCAGGATTG
Bat_coronavirus_(BtCoV/273/2005)      TTGACTTtCAGGTTACAATAGCAGAGATATTGATTATCATTATGAGGACTTTCAGGATTG
BtRf-BetaCoV/HeB2013                  TTGACTTtCAGGTTACAATAGCAGAGATATTGATTATCATTATGAGGACTTTCAGGATTG

SARS_CORONAVIRUS                      -------------------------gAcTTCAgagtTtAGAaAATgtggctTTTAAtgtT
Severe_acute_respiratory_syndrom      CCATTTGGAATCTTGAttacATcATAAacctcATAaTtAaAaAtT----TATcTAAGtCa
SARS_coronavirus_civet007             CtATTTGGAATCTTGACGTTATAATAAGTTCAATAGTGAGACAAT----TATTTAAGCCT
SARS_coronavirus_GZ50                 CtATTTGGAATCTTGACGTTATAATAAGTTCAATAGTGAGACAAT----TATTTAAGCCT
SARS_coronavirus_Taiwan_TC1           CtATTTGGAATCTTGACGTTATAATAAGTTCAATAGTGAGACAAT----TATTTAAGCCT
Bat_coronavirus_(BtCoV/273/2005)      CCATTTGGAATCTTGAtGTacTAATAAGTTCAATAGTGAGACAAT----TATTTAAGCCT
BtRf-BetaCoV/HeB2013                  CCATTTGGAATCTTGAtGTacTAATAAGTTCAATAGTGAGACAAT----TATTTAAGCCT

SARS_CORONAVIRUS                      gTAAaTAAGggacAcTtTgaTGgacaAcAgGgTGAAGtACCagT----TTctATcATtaA
Severe_acute_respiratory_syndrom      CTAACTgAGAAtAAATATTCTcAaTTAGATGAaGAgcAACCaATGGAGaTtGATT-----
SARS_coronavirus_civet007             CTAACTAAGAAGAAtTATTCgGAGTTAGATGATGAAGAACCTATGGAGTTAGATTATCCA
SARS_coronavirus_GZ50                 CTAACTAAGAAGAAtTATTCgGAGTTAGATGATGAAGAACCTATGGAGTTAGATTATCCA
SARS_coronavirus_Taiwan_TC1           CTAACTAAGAAGAAtTATTCgGAGTTAGATGATGAAGAACCTATGGAGTTAGATTATCCA
Bat_coronavirus_(BtCoV/273/2005)      CTAACTAAGAAGAAATATcCTcAGTTAGATGATGAAGAACCTATGGAGTTAGATTATCCA
BtRf-BetaCoV/HeB2013                  CTAACTAAGAAGAAATATcCTcAGTTAGATGATGAAGAACCTATGGAGTTAGATTATCCA

SARS_CORONAVIRUS                      TAAcACtgtttACAcaAAAgT-----------------TGATgGTgTTgAtgT-------
Severe_acute_respiratory_syndrom      --AAACGA---ACATGAAAATTATTCTtTTCtTGgCAcTGATaacAcTcgCtaCTTGtGA
SARS_coronavirus_civet007             TAAAACGA---ACATGAAAATTATTCTCTTCCTGACATTGATTGTATTTACATCTTGCGA
SARS_coronavirus_GZ50                 TAAAACGA---ACATGAAAATTATTCTCTTCCTGACATTGATTGTATTTACATCTTGCGA
SARS_coronavirus_Taiwan_TC1           TAAAACGA---ACATGAAAATTATTCTCTTCCTGACATTGATTGTATTTACATCTTGCGA
Bat_coronavirus_(BtCoV/273/2005)      TAAAACGA---ACATGAAAATTATTCTCTTCCTGACAcTGATTGcAcTTgCAaCTTGCGA
BtRf-BetaCoV/HeB2013                  TAAAAaGA---ACATGAAAATTATTCcCTTCtTGACATTGATTGTAcTTgCAaCTTGCGA

SARS_CORONAVIRUS                      --------------AGaAtTGTtTgAaAa---------------TAAAAcAACaTTaCCt
Severe_acute_respiratory_syndrom      GCTtTATCACTAcCAaGAGTGTGTTAGAGGTACaACaGTACTttTAAAAGAACCTTGCtC
SARS_coronavirus_civet007             GCTATATCACTATCAGGAGTGTGTTAGAGGTACGACTGTACTACTAAAAGAACCTTGCCC
SARS_coronavirus_GZ50                 GCTATATCACTATCAGGAGTGTGTTAGAGGTACGACTGTACTACTAAAAGAACCTTGCCC
SARS_coronavirus_Taiwan_TC1           GCTATATCACTATCAGGAGTGTGTTAGAGGTACGACTGTACTACTAAAAGAACCTTGCCC
Bat_coronavirus_(BtCoV/273/2005)      GtTATATCACTATCAGGAGTGTGTTAGAGGTACcACTGTACTAtTAgAAGAACCTTGCCC
BtRf-BetaCoV/HeB2013                  GtTATATCACTATCAaGAGTGTGTTAGAGGTACcACTGTACTAtTAgAAGAACCTTGCCC

SARS_CORONAVIRUS                      gT----------------tAATgtAgCATTTgAgCtTtggGCTaA----------GCgCa
Severe_acute_respiratory_syndrom      tTCtGGAACATACGAGGGCAATTCACCATTTCAtCCTCTaGCTGAtAACAAATTTGCACT
SARS_coronavirus_civet007             ATCAGGAACATACGAGGGCAATTCACCATTTCACCCTCTTGCTGAtAAtAAATTTGCACT
SARS_coronavirus_GZ50                 ATCAGGAACATACGAGGGCAATTCACCATTTCACCCTCTTGCTGACAAtAAATTTGCACT
SARS_coronavirus_Taiwan_TC1           ATCAGGAACATACGAGGGCAATTCACCATTTCACCCTCTTGCTGACAAtAAATTTGCACT
Bat_coronavirus_(BtCoV/273/2005)      ATCAGGAACATAtGAGGGCAATTCACCATTTCAtCCcCTTGCTGACAACAAATTTGCACT
BtRf-BetaCoV/HeB2013                  gTCAGGAACtTACGAGGGCAATTCACCATTTCAtCCTCTTGCTGAtAACAAATTTGCACT

SARS_CORONAVIRUS                      AcaTTaaACcAG---------------TaCcaGaGgTGAaaaTACTCaAtA--------A
Severe_acute_respiratory_syndrom      gACTTGCttTAGCACtCAaTTTGCTTTTGCTTGTcCTGACGGcgtaaaACAcgtCTATCA
SARS_coronavirus_civet007             AACTTGCACTAGCACACACTTTGCTTTTGCTTGTGCTGACGGTACTCGACAcACCTATCA
SARS_coronavirus_GZ50                 AACTTGCACTAGCACACACTTTGCTTTTGCTTGTGCTGACGGTACTCGACATACCTATCA
SARS_coronavirus_Taiwan_TC1           AACTTGCACTAGCACACACTTTGCTTTTGCTTGTGCTGACGGTACTCGACATACCTATCA
Bat_coronavirus_(BtCoV/273/2005)      AACTTGCAtTAGCACACAtTTTGCTTTTGCcTGTGCTGACGGTACTaGACATACCTATCA
BtRf-BetaCoV/HeB2013                  AACTTGCACTAGCACACAtTTTGCTTTTGCTTGTGCTGACGGTACTaGACATACCTATCA

SARS_CORONAVIRUS                      ttTGgGTGt--GgaCAtTgctgCtAAtACTgTgaTCtgggActAcAaAAGAGatGcTcCA
Severe_acute_respiratory_syndrom      GtTaCGTGCcAGATCAGTTTCACCtAAACTgT--TC----ATCAGACAAGAGGAaGTTCA
SARS_coronavirus_civet007             GCTGCGTGCAAGATCAGTTTCACCAAAACTTT--TC----ATCAGACAAGAGGAGGTTCA
SARS_coronavirus_GZ50                 GCTGCGTGCAAGATCAGTTTCACCAAAACTTT--TC----ATCAGACAAGAGGAGGTTCA
SARS_coronavirus_Taiwan_TC1           GCTGCGTGCAAGATCAGTTTCACCAAAACTTT--TC----ATCAGACAAGAGGAGGTTCA
Bat_coronavirus_(BtCoV/273/2005)      GCTtCGTGCAAGATCAGTTTCACCtAAACTTT--TC----AcCAGACAAGAGaAaGTTtA
BtRf-BetaCoV/HeB2013                  GCTtCGTGCAAGATCAGTTTCACCtAAACTTT--TC----ATCAGACAAGAGaAaGTTtA

SARS_CORONAVIRUS                      gCAcAtAtaTCTACT--------------ATTGgTG---------------------TTT
Severe_acute_respiratory_syndrom      ----AGAaCTtTACTCtCCAaTTTTTCTtATTGTTGCgGCaaTAGTgTTTATAAcACTTT
SARS_coronavirus_civet007             ACA-AGAGCTCTACTCGCCACTTTTTCTCATTGTTGCTGCTCTAGTATTTtTAATACTTT
SARS_coronavirus_GZ50                 ACA-AGAGCTCTACTCGCCACTTTTTCTCATTGTTGCTGCTCTAGTATTTtTAATACTTT
SARS_coronavirus_Taiwan_TC1           ACA-AGAGCTCTACTCGCCACTTTTTCTCATTGTTGCTGCTCTAGTATTTtTAATACTTT
Bat_coronavirus_(BtCoV/273/2005)      cCA-AGAGCTCTAtTCGCCgCTTTTTCTCATTGTTGCgGCTtTAGTATTTATAATACTTT
BtRf-BetaCoV/HeB2013                  cCA-AGAGCTCTAtTCGCCgCTTTTTCTCATTGTTGCTGCTtTAGTATTTATAATACTTT

SARS_CORONAVIRUS                      GtTctAtgAcT--------GACAtAgccAAgaAaCcaACTgaAA-------CgATTTGTG
Severe_acute_respiratory_syndrom      GCTTCACacTcAAaAGAAAGACAGAATGAtTGAaCTttCaTTAATTGACTTCTATTTGTG
SARS_coronavirus_civet007             GCTTCACCATTAAGAGAAAGACAGAATGAATGAGCTCACTTTAATTGACTTCTATTTGTG
SARS_coronavirus_GZ50                 GCTTCACCATTAAGAGAAAGACAGAATGAATGAGCTCACTTTAATTGACTTCTATTTGTG
SARS_coronavirus_Taiwan_TC1           GCTTCACCATTAAGAGAAAGACAGAATGAATGAGCTCACTTTAATTGACTTCTATTTGTG
Bat_coronavirus_(BtCoV/273/2005)      GCTTCACCATTAAGAGAAAGACAGAATGAgTGAGCTCACTTTAATTGACTTCTATTTGTG
BtRf-BetaCoV/HeB2013                  GCTTCACCATTAAGAGgAAGACAGAATGAATGAGCTCACTTTAATTGACTTCTATTTGTG

SARS_CORONAVIRUS                      C--------------aCcAcTCacTGTcTT----------------TTTTGaTggT----
Severe_acute_respiratory_syndrom      CTTTTTAGCCTTTCTGCTATTCCTTGTTTTAATtATGCTTATTATcTTTTGGTTcTCACT
SARS_coronavirus_civet007             CTTTTTAGCCTTTCTGCTATTCCTTGTTTTAATAATGCTTATTATATTTTGGTTTTCACT
SARS_coronavirus_GZ50                 CTTTTTAGCCTTTCTGCTATTCCTTGTTTTAATAATGCTTATTATATTTTGGTTTTCACT
SARS_coronavirus_Taiwan_TC1           CTTTTTAGCCTTTCTGCTATTCCTTGTTTTAATAATGCTTATTATATTTTGGTTTTCACT
Bat_coronavirus_(BtCoV/273/2005)      CTTTTTAGCCTTTCTGCTATTCCTTGTTcTAATAATGCTTATcATATTTTGGTTTTCACT
BtRf-BetaCoV/HeB2013                  CTTTTTAGCCTTTCTGCTATTCCTTGTTcTAATAATGCTTATTATATTTTGGTTTTCACT

SARS_CORONAVIRUS                      -agAgTtgAtGgTCaAG--------------------TAgACttAttTagAAaTgCcCgT
Severe_acute_respiratory_syndrom      tGAAcTgCAaGATCataAtGAAaCTTGTcAC---GcCTAAACGAACATGAAAtTTCTtgT
SARS_coronavirus_civet007             CGAAATCCAGGATCTAGAAGAACCTTGTAcCAAAGTCTAAACGAACATGAAACTTCTCAT
SARS_coronavirus_GZ50                 CGAAATCCAGGATCTAGAAGAACCTTGTAcCAAAGTCTAAACGAACATGAAACTTCTCAT
SARS_coronavirus_Taiwan_TC1           CGAAATCCAGGATCTAGAAGAACCTTGTAcCAAAGTCTAAACGAACATGAAACTTCTCAT
Bat_coronavirus_(BtCoV/273/2005)      tGAAcTCCAGGATaTAGAAGAACCTTGTAACAAAGTtTAAACaAACATGAAAtTTCTCAT
BtRf-BetaCoV/HeB2013                  tGAAcTCCAGGATaTAGAAGAACCTTGTAACAAAGTCTAAACGAACATGAAACTTCTCAT

SARS_CORONAVIRUS                      aaTggTG--------TTCTtatTaCAG--------------------AaggtAGtGtTaa
Severe_acute_respiratory_syndrom      TtTcTTaggaatcATcaCaac-TGtAGCTGCATttcaccaagAaTGTAGTttAcaGtcaT
SARS_coronavirus_civet007             TGTTTTGACTTGTATTTCTCTATGCAGtTGCATAC-----GCACTGTAGTACAGCGCTGT
SARS_coronavirus_GZ50                 TGTTTTGACTTGTATTTCTCTATGCAGtTGCATAC-----GCACTGTAGTACAGCGCTGT
SARS_coronavirus_Taiwan_TC1           TGTTTTGACTTGTATTTCTCTATGCAGtTGCATAt-----GCACTGTAGTACAGCGCTGT
Bat_coronavirus_(BtCoV/273/2005)      TGTTaTGACTTGTATaTCTCTtTGCtGCTGtATAC-----GCACTGTgGTACAGCGCTGT
BtRf-BetaCoV/HeB2013                  TGTTaTGACTTGTATcTCTCTtTGCtGCTGtATAC-----GCACTGTgGTACAGCGCTGT

SARS_CORONAVIRUS                      aggTtTAc----AACCaTcTGT--------------------------------------
Severe_acute_respiratory_syndrom      GtActcAAcAtcAACCaTATGTagTTGAtGACCCgTGTCCtAtTcacTtCtAttCtaAA-
SARS_coronavirus_civet007             GCATCTAATA--AACCTcATGTGCTTGAAGAtCCTTGTCCtACTGGTTACCAaCCtGAAT
SARS_coronavirus_GZ50                 GCATCTAATA--AACCTcATGTGCTTGAAGAtCCTTG-----------------------
SARS_coronavirus_Taiwan_TC1           GCATCTAATA--AACCTcATGTGCTTGAAGAtCCTTG-----------------------
Bat_coronavirus_(BtCoV/273/2005)      GCATCTAATA--cACCTTATGTtCTTGAAaACCCaTGTCCCACTGGTTAtCAGCCAGAgT
BtRf-BetaCoV/HeB2013                  GtATCTAATA--cACCTTATGTtCTTGAAaACCCaTGTCCCACTGGTTAtCAGCCAGAgT

SARS_CORONAVIRUS                      --------AGGTcCcAaACaAG--cTAgTctTaATgGagtcaCa--Ttaa---------T
Severe_acute_respiratory_syndrom      ------TggtaTAttAgAgTAGGaGctAgAaaatcAGCACcttTaaTtGaaTTGTGCg-T
SARS_coronavirus_civet007             GGAAtATAAGGTACAAaACTAGGGGTAATACTTATAGCACTGCT--TGGCTTTGTGCTCT
SARS_coronavirus_GZ50                 ------TAAGGTACAACACTAGGGGTAATACTTATAGCACTGCT--TGGCTTTGTGCTCT
SARS_coronavirus_Taiwan_TC1           ------TAAGGTACAACACTAGGGGTAATACTTATAGCACTGCT--TGGCTTTGTGCTCT
Bat_coronavirus_(BtCoV/273/2005)      GGAACATtAGGTAtAACACTAGGGGTAATACTTATAaCAgTGCT--aGaCTgTGTGCTtT
BtRf-BetaCoV/HeB2013                  GGAACATtAGGTAtAACACTAGGGGTAATACTTATAaCACTGCT--aGaCTgTGTGCctT

SARS_CORONAVIRUS                      tGGAgAaGcc---------gTA-------------------------AaAacAcaGTTCA
Severe_acute_respiratory_syndrom      gGatgAGGcTggttctaaaTcACCcaTTcagtaCATcGATatCggtaAttaTAcaGTTt-
SARS_coronavirus_civet007             AGGAAAGGTT---------TTACCTTTT-----CATAGATGGC----ACACTATGGTTCA
SARS_coronavirus_GZ50                 AGGAAAGGTT---------TTACCTTTT-----CATAGATGGC----ACACTATGGTTCA
SARS_coronavirus_Taiwan_TC1           AGGAAAGGTT---------TTACCTTTT-----CATAGATGGC----ACACTATGGTTCA
Bat_coronavirus_(BtCoV/273/2005)      AGGAAAaGTT---------TTAtCTTTT-----CATAGgTGGC----ACACTATGGTTCA
BtRf-BetaCoV/HeB2013                  AGGAAAaGTT---------cTAtCTTTT-----CATAGATGGC----ACACTATGGTTCA

SARS_CORONAVIRUS                      A----------------TTAtTATCtgC--------------AGTAGGTcGTtCtgcTGT
Severe_acute_respiratory_syndrom      --CcTGtttACCTt---TTACaATtAAtTGcCAgGAaCCtaaAtTgGGTaGT---CTTGT
SARS_coronavirus_civet007             AACATGCACACCTAATGTTACTATCAACTGTCAAGATCC---AGctGGTGGTGCGCTTaT
SARS_coronavirus_GZ50                 AACATGCACACCTAATGTTACTATCAACTGTCAAGATCC---AGctGGTGGTGCGCTTaT
SARS_coronavirus_Taiwan_TC1           AACATGCACACCTAATGTTACTATCAACTGTCAAGATCC---AGctGGTGGTGCGCTTaT
Bat_coronavirus_(BtCoV/273/2005)      AgCATGtACACCTAATGTcACcATCAAtTGTCAAGATCC---AGTAGGTGGTGCaCTTGT
BtRf-BetaCoV/HeB2013                  AgCATGtACACCTAATGTcACcATCAAtTGTCAAGATCC---AGTAGGTGGTGCaCTTGT

SARS_CORONAVIRUS                      -tCcAGGTGcTGtgcgatctCCTTcaCATGcAGGTTggtgAcCCGCTGCtccTgtAtcAg
Severe_acute_respiratory_syndrom      AGtgcGtTGTTc-----GTtC-----tATGAAGacT-------------tTTTAGAgtAt
SARS_coronavirus_civet007             AGCtAGGTGTTG-----GTACCTT--CATGAAGGTcACCAAACtGCTGCATTTAGA----
SARS_coronavirus_GZ50                 AGCtAGGTGTTG-----GTACCTT--CATGAAGGTcACCAAACtGCTGCATTTAGA----
SARS_coronavirus_Taiwan_TC1           AGCtAGGTGTTG-----GTACCTT--CATGAAGGTcACCAAACtGCTGCATTTAGA----
Bat_coronavirus_(BtCoV/273/2005)      AGCgAGaTGTTG-----GTACtTT--tAccAAGGTTcCCAgACCGCTaCATTTAGA----
BtRf-BetaCoV/HeB2013                  AGCgAGaTGTTG-----GTACtTT--tAccgAGGTTcCCAgACCGCTaCATTTAGA----

SARS_CORONAVIRUS                      CtTGgCGgAgTTG-------------------------------AgAgcAAtgcGgCTct
Severe_acute_respiratory_syndrom      CaTGACGTtCgTGT-----TGTTTTAgAtttcatcTAAACGAACAAAcTAAAATGTCTGA
SARS_coronavirus_civet007             ---GACGTACTTGT-----TGTTTTAAA-------TAAACGAACAAATTAAAATGTCTGA
SARS_coronavirus_GZ50                 ---GACGTACTTGT-----TGTTTTAAA-------TAAACGAACAAATTAAAATGTCTGA
SARS_coronavirus_Taiwan_TC1           ---GACGTACTTGT-----TGTTTTAAA-------TAAACGAACAAATTAAAATGTCTGA
Bat_coronavirus_(BtCoV/273/2005)      ---GACaTACaTGTAGATCTGTTcTt---------TAAACGAAC---TTAAAATGTCTGA
BtRf-BetaCoV/HeB2013                  ---GACaTACacGTAGATCTGTTcTt---------TAAACGAAC---TTAAAATGTCTGA

SARS_CORONAVIRUS                      TgAgcGcttgCggcttgACCgACGTg------tCtGCA-------TGcTGGgCCaTCAtg
Severe_acute_respiratory_syndrom      TAATGGACCCCA---AAAtCAgCGaAaTGCaCCCCGCATTACgTTTGGTGGACCCTCAGA
SARS_coronavirus_civet007             TAATGGACCCCAATCAAACCAACGTAGTGCCCCCCGCATTACATTTGGTGGACCtaCAGA
SARS_coronavirus_GZ50                 TAATGGACCCCAATCAAACCAACGTAGTGCCCCCCGCATTACATTTGGTGGACCCaCAGA
SARS_coronavirus_Taiwan_TC1           TAATGGACCCCAATCAAACCAACGTAGTGCCCCCCGCATTACATTTGGTGGACCCaCAGA
Bat_coronavirus_(BtCoV/273/2005)      TAATGGACCCCA---AAACCAACGTAGTGCCCCCCGCATTACATTTGGTGGACCCTCAGA
BtRf-BetaCoV/HeB2013                  TAATGGACCCCA---AAACCAACGTAGTGCCCCCCGCATTACATTTGGTGGACCCTCAGA

SARS_CORONAVIRUS                      TcCA------------CAGgggtctcTGGtGGcaGagGTGGGG-------------GCGC
Severe_acute_respiratory_syndrom      TTCAACTGgCAgTAACCAGAA-----TGGAGaACGCAGTGGGGCgcGatCAAAACAaCGt
SARS_coronavirus_civet007             TTCAACTGACAAcAACCAGAA-----TGGAGGACGCAaTGGGGCAAGGCCAAAACAGCGC
SARS_coronavirus_GZ50                 TTCAACTGACAATAACCAGAA-----TGGAGGACGCAaTGGGGCAAGGCCAAAACAGCGC
SARS_coronavirus_Taiwan_TC1           TTCAACTGACAATAACCAGAA-----TGGAGGACGCAaTGGGGCAAGGCCAAAACAGCGC
Bat_coronavirus_(BtCoV/273/2005)      TTCAACTGACAATAACCAGgA-----TGGAGGACGCAGTGGtGCAcGGCCAAAACAaCGC
BtRf-BetaCoV/HeB2013                  TTCAACTGACAATAACCAGgA-----TGGAGGACGCAGTGGtGtAcGGCCAAAACAaCGC

SARS_CORONAVIRUS                      C----------TcagCCgtgcAgTACTcCacCac--------GCcCTCctcCAGCgTG--
Severe_acute_respiratory_syndrom      CGgCCCCAAGGTTTACCCAATAATACTGCGTCTTGGTTCACcGCTCTCACTCAaCATGGC
SARS_coronavirus_civet007             CGACCCCAAGGTTTACCCAATAATACTGCGTCTTGGTTCACAGCTCTCACTCAGCATGGC
SARS_coronavirus_GZ50                 CGACCCCAAGGTTTACCCAATAATACTGCGTCTTGGTTCACAGCTCTCACTCAGCATGGC
SARS_coronavirus_Taiwan_TC1           CGACCCCAAGGTTTACCCAATAATACTGCGTCTTGGTTCACAGCTCTCACTCAGCATGGC
Bat_coronavirus_(BtCoV/273/2005)      CGACCCCAgGGTTTACCCAATAATACTGCGTCTTGGTTCACAGCTCTCACTCAGCATGGt
BtRf-BetaCoV/HeB2013                  CGACCCCAgGGTTTACCCAATAATACTGCGTCTTGGTTCACAGCTCTCACTCAGCATGGt

SARS_CORONAVIRUS                      --tGAtGttCTTAAccTCCtT----------GaGactCcgTCtgCctCgA----------
Severe_acute_respiratory_syndrom      AAGGAAGAcCTTAAATTCCCTCGAGGaCAaGGCGTTCCAATtAACACCAATAGcaGTCCA
SARS_coronavirus_civet007             AAGGAgGAACTTAgATTCCCTCGAGGCCAGGGCGTTCCAATCAACACCAATAGTGGTCCA
SARS_coronavirus_GZ50                 AAGGAgGAACTTAgATTCCCTCGAGGCCAGGGCGTTCCAATCAACACCAATAGTGGTCCA
SARS_coronavirus_Taiwan_TC1           AAGGAgGAACTTAgATTCCCTCGAGGCCAGGGCGTTCCAATCAACACCAATAGTGGTCCA
Bat_coronavirus_(BtCoV/273/2005)      AAGGAAGgACTcAAATTCCCTCaAGGCCAGGGaGTTCCtATCAACACCAATAGTGGcagA
BtRf-BetaCoV/HeB2013                  AAGGAAGgACTcAAATTCCCTCaAGGCCAGGGaGTTCCtATCAACACCAATAGTGGcagA

SARS_CORONAVIRUS                      ---GAaCAgATctttTttTtCC------CagttCattGAGTTtGgaGTttTG--GaTAcc
Severe_acute_respiratory_syndrom      GATGACCAAATTGGCTACTACCGAAGAGCTACCaGACGAaTTCGTGGTGGTGACGGTAAA
SARS_coronavirus_civet007             GATGACCAAATTGGCTACTACCGAAGAGCTACCCGACGAGTTCGTGGTGGTGACGGcAAA
SARS_coronavirus_GZ50                 GATGACCAAATTGGCTACTACCGAAGAGCTACCCGACGAGTTCGTGGTGGTGACGGcAAA
SARS_coronavirus_Taiwan_TC1           GATGACCAAATTGGCTACTACCGAAGAGCTACCCGACGAGTTCGTGGTGGTGACGGcAAA
Bat_coronavirus_(BtCoV/273/2005)      GATGACCAAATTGGCTACTACaGAAGAGCTACCCGACGAGTTCGTGGTGGTGACGGTAAA
BtRf-BetaCoV/HeB2013                  GAcGACCAAATTGGCTACTACaGAAGAGCTACCCGACGAGTTCGTGGTGGTGACGGTAAA

SARS_CORONAVIRUS                      ATGcAgaAagTt------------TACcTtTAagACtgAGcAcCattttgAtAAcCTT--
Severe_acute_respiratory_syndrom      ATGAAAGAtCTCAGtCCaAGATGGTAtTTCTAcTACCTAGGAACTGGgCCAGAAGCTggA
SARS_coronavirus_civet007             ATGAAAGAGCTCAGCCCCAGATGGTACTTCTATTACCTAGGAACTGGCCCAGAAGCTTCA
SARS_coronavirus_GZ50                 ATGAAAGAGCTCAGCCCCAGATGGTACTTCTATTACCTAGGAACTGGCCCAGAAGCTTCA
SARS_coronavirus_Taiwan_TC1           ATGAAAGAGCTCAGCCCCAGATGGTACTTCTATTACCTAGGAACTGGCCCAGAAGCTTCA
Bat_coronavirus_(BtCoV/273/2005)      ATGAAAGAGCTCAGCCCCAGATGGTACTTCTATTACCTAGGAACTGGCCCAGAAGCTTCA
BtRf-BetaCoV/HeB2013                  ATGAAAGAGCTCAGCCCCAGATGGTACTTCTATTACCTAGGAACTGGCCCAGAAGCTTCA

SARS_CORONAVIRUS                      CcTCCCcAaaaCGtTcAtg----------CtcAcGaGTT-----TGtGGGAaaagTGAAa
Severe_acute_respiratory_syndrom      CTTCCCTAtGGtGCTAACAAAGAcGGCATCaTATGGGTTGCAACTGAGGGAGCCTTGAAT
SARS_coronavirus_civet007             CTTCCCTACGGCGCTAACAAAGAAGGCATCGTATGGGTTGCAACTGAGGGAGCCTTGAAT
SARS_coronavirus_GZ50                 CTTCCCTACGGCGCTAACAAAGAAGGCATCGTATGGGTTGCAACTGAGGGAGCCTTGAAT
SARS_coronavirus_Taiwan_TC1           CTTCCCTACGGCGCTAACAAAGAAGGCATCGTATGGGTTGCAACTGAGGGAGCCTTGAAT
Bat_coronavirus_(BtCoV/273/2005)      CTTCCCTAtGGtGCcAAtAAAGAAGGCATCGTATGGGTTGCAACTGAGGGtGCCTTGAAT
BtRf-BetaCoV/HeB2013                  CTTCCCTAtGGtGCcAAtAAAGAAGGCATCGTATGGGTTGCAACTGAGGGtGCCTTGAAc

SARS_CORONAVIRUS                      gCcagtACCCAcAGAaaACtaTGG-----------CTgAacACAg-GCTcaCATC-----
Severe_acute_respiratory_syndrom      AC----ACCaAAAGAtCACATTGGCACCCGCAATCCTgcTAACAATGCTGCaATCGTGCT
SARS_coronavirus_civet007             AC----ACCCAAAGACCACATTGGCACCCGCAATCCTAATAACAATGCTGCCAcCGTGCT
SARS_coronavirus_GZ50                 AC----ACCCAAAGACCACATTGGCACCCGCAATCCTAATAACAATGCTGCCAcCGTGCT
SARS_coronavirus_Taiwan_TC1           AC----ACCCAAAGACCACATTGGCACCCGCAATCCTAATAACAATGCTGCCAcCGTGCT
Bat_coronavirus_(BtCoV/273/2005)      AC----ACCaAAAGAtCAtATTGGCACCCGCAATCCTAATAACAATGCTGCtATtGTGCT
BtRf-BetaCoV/HeB2013                  AC----ACCaAAAGAtCAtATTGGCACCCGCAATCCTAATAACAATGCTGCtATtGTGCT

SARS_CORONAVIRUS                      ACgACT--------------------------GCTTCT---------------GtGGCtG
Severe_acute_respiratory_syndrom      ACAACTTCCTCAAGGAACAACATTGCCAAAAGGCTTCTACGCAGAAGGgAGCAGAGGCGG
SARS_coronavirus_civet007             ACAACTTCCTCAAGGAACAACATTGCCAAAAGGCTTCTACGCAGAgGGAAGCAGAGGCGG
SARS_coronavirus_GZ50                 ACAACTTCCTCAAGGAACAACATTGCCAAAAGGCTTCTACGCAGAgGGAAGCAGAGGCGG
SARS_coronavirus_Taiwan_TC1           ACAACTTCCTCAAGGAACAACATTGCCAAAAGGCTTCTACGCAGAgGGAAGCAGAGGCGG
Bat_coronavirus_(BtCoV/273/2005)      ACAACTTCCTCAAGGAACAACATTGCCAAAAGGCTTCTACGCAGAAGGgAGCAGgaatGG
BtRf-BetaCoV/HeB2013                  ACAACTTCCTCAAGGAACAACATTGCCAAAAGGCTTCTACGCAGAAGGgAGCAGgaatGG

SARS_CORONAVIRUS                      ttGaCcAGC-------CatcCaTCtTtgCG-----GtaGTAgcaCAAGAcAgTTtAA---
Severe_acute_respiratory_syndrom      CAGTCAAGCCTCTTCTCGtTCCTCATCACGTAGTCGCaacAgTTCAAGA-AATTCAACTC
SARS_coronavirus_civet007             CAGTCAAGCCTCTTCTCGCTCCTCATCACGTAGTCGCGGTAATTCAAGA-AATTCAACTC
SARS_coronavirus_GZ50                 CAGTCAAGCCTCTTCTCGCTCCTCATCACGTAGTCGCGGTAATTCAAGA-AATTCAACTC
SARS_coronavirus_Taiwan_TC1           CAGTCAAGCCTCTTCTCGCTCCTCATCACGTAGTCGCGGTAATTCAAGA-AATTCAACTC
Bat_coronavirus_(BtCoV/273/2005)      tAGTCAAGCCTCTTCTCGCTCCTCATCACGTAGTCGtGGaAATTCAAGA-AcTTCAACTC
BtRf-BetaCoV/HeB2013                  tAGTCAAGCCTCTTCTCGCTCCTCATCACGTAGTCGtGGaAATTCAAGA-AcTTCAACTC

SARS_CORONAVIRUS                      -TGaCAGCAGT----GAgAcTtgCtgcCTtGAAT--tTA--------GGTGAAACatttg
Severe_acute_respiratory_syndrom      CaGGCAGCAGTAGGGGAAcTTCTCCTGCTaGAATGGCTgGCaatGGcGGTGAtgCTGCtC
SARS_coronavirus_civet007             CTGGCAGCAGTAGGGGAAATTCTCCTGCTCGAATGGCTAGCGGAGGTGGTGAAACTGCCC
SARS_coronavirus_GZ50                 CTGGCAGCAGTAGGGGAAATTCTCCTGCTCGAATGGCTAGCGGAGGTGGTGAAACTGCCC
SARS_coronavirus_Taiwan_TC1           CTGGCAGCAGTAGGGGAAATTCTCCTGCTCGAATGGCTAGCGGAGGTGGTGAAACTGCCC
Bat_coronavirus_(BtCoV/273/2005)      CTGGCAGCAGTAGGGGAAATTCTCCTGCTCGAgTGGCTAGCGGAGGTGGTGAAACTGCCC
BtRf-BetaCoV/HeB2013                  CTGGCAGCAGTAGGGGAAATTCTCCTGCTCGAgTGGCTAGCGGAGGTGGTGAAACTGCCC

SARS_CORONAVIRUS                      TCaCGCacT------cAaAggGATTGtACag----------AAAGTgT---GTtAAatCC
Severe_acute_respiratory_syndrom      TtGCttTgcTGCTGCTtGACAGATTGAACCAGCTTGAGAGCAAAaTgTCTGGTAAAGGCC
SARS_coronavirus_civet007             TCGCGCTATTGCTGCTAGACAGATTGAACCAGCTTGAGAGCAAAGTTTCTGGTAAAGGCC
SARS_coronavirus_GZ50                 TCGCGCTATTGCTGCTAGACAGATTGAACCAGCTTGAGAGCAAAGTTTCTGGTAAAGGCC
SARS_coronavirus_Taiwan_TC1           TCGCGCTATTGCTGCTAGACAGATTGAACCAGCTTGAGAGCAAAGTTTCTGGTAAAGGCC
Bat_coronavirus_(BtCoV/273/2005)      TCGCGCTATTGCTGtTAGACAGATTGAACCAGCTgGAGAGCAAAGTTTCTGGTAAAGGCC
BtRf-BetaCoV/HeB2013                  TCGCGCTATTGCTGtTAGACAGATTGAACCAGCTgGAGAGCAAAGTTTCTGGTAAAGGCC

SARS_CORONAVIRUS                      A--------gAGaagAAACTGgC-------------CTaCTcAtGCcTCTAAAAgcC---
Severe_acute_respiratory_syndrom      AACAACAACAAGGCCAAACTGTCACTAAGAAATCTGCTGCTGAGGCtTCTAAgAAGCCTC
SARS_coronavirus_civet007             AACAACAACAAGGCCAAACTGTCACTAAGAAATCTGCTGCTGAGGCATCTAAAAAGCCTC
SARS_coronavirus_GZ50                 AACAACAACAAGGCCAAACTGTCACTAAGAAATCTGCTGCTGAGGCATCTAAAAAGCCTC
SARS_coronavirus_Taiwan_TC1           AACAACAACAAGGCCAAACTGTCACTAAGAAATCTGCTGCTGAGGCATCTAAAAAGCCTC
Bat_coronavirus_(BtCoV/273/2005)      AACAACAACAAGGCCAAACTGTCACTAAGAAATCTGCTtCaGAGGCATCTAAAAAGCCTC
BtRf-BetaCoV/HeB2013                  AACAACAACAAGGCCAAACTGTCACTAAGAAATCTGCTtCaGAGGCATCTAAAAAGCCTC

SARS_CORONAVIRUS                      ------------------------------------------------------------
Severe_acute_respiratory_syndrom      GgCAAAAACGTACTGCCACtAAAgcaTACAAtGTaACaCAAGCtTTcGGcAGACGTGGTC
SARS_coronavirus_civet007             GCCAAAAACGTACTGCCACAAAACAGTACAACGTCACTCAAGCATTTGGGAGACGTGGTC
SARS_coronavirus_GZ50                 GCCAAAAACGTACTGCCACAAAACAGTACAACGTCACTCAAGCATTTGGGAGACGTGGTC
SARS_coronavirus_Taiwan_TC1           GCCAAAAACGTACTGCCACAAAACAGTACAACGTCACTCAAGCATTTGGGAGACGTGGTC
Bat_coronavirus_(BtCoV/273/2005)      GaCAAAAACGTACTGCaACcAAACAGTACAAtGTCACcCAAGCtTTTGGGcGACGTGGTC
BtRf-BetaCoV/HeB2013                  GaCAAAAACGTACTGCaACcAAACAGTAtAAtGTCACcCAAGCtTTTGGGcGACGTGGTC

SARS_CORONAVIRUS                      ---------CCaAAaGAAATT------------AtCTtcTtAGAgggaG----------A
Severe_acute_respiratory_syndrom      CAGAACAAACCCAAGGAAATTTtGGGGACCAgGAaCTAATCAGACAAGGAACTGATTACA
SARS_coronavirus_civet007             CAGAACAAACCCAAGGAAATTTCGGGGACCAAGACCTAATCAGACAAGGAACTGATTACA
SARS_coronavirus_GZ50                 CAGAACAAACCCAAGGAAATTTCGGGGACCAAGACCTAATCAGACAAGGAACTGATTACA
SARS_coronavirus_Taiwan_TC1           CAGAACAAACCCAAGGAAATTTCGGGGACCAAGACCTAATCAGACAAGGAACTGATTACA
Bat_coronavirus_(BtCoV/273/2005)      CAGAtCAAACtCAAGGAAAcTTtGGaGACCAgGAgtTAATCAGACAAGGAACTGATTAtA
BtRf-BetaCoV/HeB2013                  CAGAtCAAACtCAAGGAAAcTTtGGaGACCAgGAgtTAATCAGACAAGGAACTGATTAtA

SARS_CORONAVIRUS                      AACACTtcCCaCAgA-----------------AGTG------------------------
Severe_acute_respiratory_syndrom      AACAtTGGCCGCAAATTGCACAATTTGCcCCcAGcGCtTCaGCgTTCTTCGGAATGTCgC
SARS_coronavirus_civet007             AACAgTGGCCGCAAATTGCACAATTTGCTCCAAGTGCCTCTGCATTCTTtGGAATGTCAC
SARS_coronavirus_GZ50                 AACAtTGGCCGCAAATTGCACAATTTGCTCCAAGTGCCTCTGCATTCTTtGGAATGTCAC
SARS_coronavirus_Taiwan_TC1           AACAtTGGCCGCAAATTGCACAATTTGCTCCAAGTGCCTCTGCATTCTTtGGAATGTCAC
Bat_coronavirus_(BtCoV/273/2005)      AACACTGGCCGCAAATaGCACAgTTTGCTCCAAGTGCCTCTGCATTCTTCGGAATGTCAC
BtRf-BetaCoV/HeB2013                  AACACTGGCCGCAAATaGCACAgTTTGCTCCAAGTGCCTCTGCATTCTTCGGAATGTCAC

SARS_CORONAVIRUS                      ---TTaaCAgaGGAAGTtg-----TCttGAAaActGgTGAtTTAc-----AaCCATTA--
Severe_acute_respiratory_syndrom      GCATTGGCAT-GGAAGTCACACCTTCGGGAACgTGGtTGACcTAcacaGGtGCCATcAAA
SARS_coronavirus_civet007             GCATTGGCAT-GGAAGTCACACCTTCGGGAACATGGCTGACTTATCATGGAGCCATTAAA
SARS_coronavirus_GZ50                 GCATTGGCAT-GGAAGTCACACCTTCGGGAACATGGCTGACTTATCATGGAGCCATTAAA
SARS_coronavirus_Taiwan_TC1           GCATTGGCAT-GGAAGTCACACCTTCGGGAACATGGCTGACTTATCATGGAGCCATTAAA
Bat_coronavirus_(BtCoV/273/2005)      GCATTaGCAT-GGAAGTCACACCTTCGGGAACATGGCTGACTTATCATGGAGCCATTAAA
BtRf-BetaCoV/HeB2013                  GCATTGGCAT-GGAAGTCACACCTTCGGGAACATGGCTGACTTAcCATGGAGCCATTAAA

SARS_CORONAVIRUS                      --------------------------------------------GAACAA----------
Severe_acute_respiratory_syndrom      TTGGATGACAAAGATCCAaAtTTCAAAGAtcAaGTCATttTGCTGAAtAAGCAtATTGAC
SARS_coronavirus_civet007             TTGGATGACAAAGATCCACAATTCAAAGACAACGTCATACTGCTGAACAAGCACATTGAC
SARS_coronavirus_GZ50                 TTGGATGACAAAGATCCACAATTCAAAGACAACGTCATACTGCTGAACAAGCACATTGAC
SARS_coronavirus_Taiwan_TC1           TTGGATGACAAAGATCCACAATTCAAAGACAACGTCATACTGCTGAACAAGCACATTGAC
Bat_coronavirus_(BtCoV/273/2005)      TTGGATGACAAAGATCCcCAATTCAAAGACAACGTCATACTGCTGAACAAGCACATTGAC
BtRf-BetaCoV/HeB2013                  TTGGATGACAAAGATCCcCAATTCAAAGACAACGTCATACTGtTGAAtAAGCACATTGAC

SARS_CORONAVIRUS                      --------------CCtACtAgtgaAG-------------------------CTGtTGAA
Severe_acute_respiratory_syndrom      GCATACAAAACATTCCCACCAACAGAGCCTAAAAAGGACAAAAAGAAgAAGgCTGATGAA
SARS_coronavirus_civet007             GCATACAAAACATTCCCACCAACAGAGCCTAAAAAGGACAAAAAGAAAAAGACTGATGAA
SARS_coronavirus_GZ50                 GCATACAAAACATTCCCACCAACAGAGCCTAAAAAGGACAAAAAGAAAAAGACTGATGAA
SARS_coronavirus_Taiwan_TC1           GCATACAAAACATTCCCACCAACAGAGCCTAAAAAGGACAAAAAGAAAAAGACTGATGAA
Bat_coronavirus_(BtCoV/273/2005)      GCATACAAAACATTCCCACCAACAGAGCCTAAAAAGGACAAAAAGAAAAAGACTGATGAA
BtRf-BetaCoV/HeB2013                  GCATACAAAACATTCCCACCAACAGAGCCTAAAAAGGACAAAAAGAAAAAGACTGATGAA

SARS_CORONAVIRUS                      GCTC--CaTTgGttG-----------------GtaCACcG-----CTTCaaCCaattatT
Severe_acute_respiratory_syndrom      aCTCAagCcTTaCCGCAGAGACAgAAGAAACAGCaaACTGTGACTCTTCTTCCTGCtGCa
SARS_coronavirus_civet007             GCTCAGCCTTTGCtGCAGAGACAAAAGAAgCAGCCCACTGTGACTCTTCTTCCTGCGGCT
SARS_coronavirus_GZ50                 GCTCAGCCTTTGCCGCAGAGACAAAAGAAgCAGCCCACTGTGACTCTTCTTCCTGCGGCT
SARS_coronavirus_Taiwan_TC1           GCTCAGCCTTTGCCGCAGAGACAAAAGAAgCAGCCCACTGTGACTCTTCTTCCTGCGGCT
Bat_coronavirus_(BtCoV/273/2005)      GCTCAGCCTTTaCCGCAGAGACAAAAGAAACAGCCCACTGTGACTCTTCTTCCTGCGGCc
BtRf-BetaCoV/HeB2013                  GCTCAGCCTTTaCCGCAGAGACAAAAGAAACAGCCCACTGTGACTCTTCTTCCTGCGGCc

SARS_CORONAVIRUS                      aACA------ATTTtaCCA--------------cCCtTaAGTGctatcTtTGtTGtTaCA
Severe_acute_respiratory_syndrom      GAttTGGATGATTTCTCCAaACAAtTgCAAcAaTCCATGAGcaG------TGCTGAcTCA
SARS_coronavirus_civet007             GACATGGATGATTTCTCCAGACAACTTCAAAATTCCATGAGTGGAGCTTCTGCTGATTCA
SARS_coronavirus_GZ50                 GACATGGATGATTTCTCCAGACAACTTCAAAATTCCATGAGTGGAGCTTCTGCTGATTCA
SARS_coronavirus_Taiwan_TC1           GACATGGATGATTTCTCCAGACAACTTCAAAATTCCATGAGTGGAGCTTCTGCTGATTCA
Bat_coronavirus_(BtCoV/273/2005)      GACATGGATGATTTCTCCAGACAACTTCAAAATTCCATGAGTGGAGCTTCTGCTGATTCA
BtRf-BetaCoV/HeB2013                  GACATGGATGATTTCTCCAGACAACTTCAAAATTCCATGAGTGGAGCTTCTGCTGATTCA

SARS_CORONAVIRUS                      A------CATtAACA--------------ACttGtCtagTaG-------------TTgCa
Severe_acute_respiratory_syndrom      ACTCAGGCcTAAAC--TCATGcaGACCACACAAGGCAGATGGGCTATaTAAACGTTTTCG
SARS_coronavirus_civet007             ACTCAGGCATAAACACTCATGATGACCACACAAGGCAGATGGGCTATGTAAACGTTTTCG
SARS_coronavirus_GZ50                 ACTCAGGCATAAACACTCATGATGACCACACAAGGCAGATGGGCTATGTAAACGTTTTCG
SARS_coronavirus_Taiwan_TC1           ACTCAGGCATAAACACTCATGATGACCACACAAGGCAGATGGGCTATGTAAACGTTTTCG
Bat_coronavirus_(BtCoV/273/2005)      ACTCAGGCATAAACACTCATGATGACCACACAAGGCAGATGGGCTATGTAAACGTTTTCG
BtRf-BetaCoV/HeB2013                  ACTCAGGCATAAACACTCATGATGACCACACAAGGCAGATGGGCTATGTAAACGTTTTCG

SARS_CORONAVIRUS                      CAtgTCaacTTAaaAggtAagtTaTtCTtTTtaGCAGcActAcgtatttgTTtTCGTAgt
Severe_acute_respiratory_syndrom      CttTTCCGTTTACGATAtATAGTCTACTCTTGTGCAGAATGA-------ATTCTCGTAAC
SARS_coronavirus_civet007             CAATTCCGTTTACGATACATAGTCTACTCTTGTGCAGAATGA-------ATTCTCGTAAC
SARS_coronavirus_GZ50                 CAATTCCGTTTACGATACATAGTCTACTCTTGTGCAGAATGA-------ATTCTCGTAAC
SARS_coronavirus_Taiwan_TC1           CAATTCCGTTTACGATACATAGTCTACTCTTGTGCAGAATGA-------ATTCTCGTAAC
Bat_coronavirus_(BtCoV/273/2005)      CAATTCCGTTTACGATACATAGTCTACTCTTGTGCAGAATGA-------ATTCTCGTAAC
BtRf-BetaCoV/HeB2013                  CAATTCCGTTTACGATACATAGTCTACTCTTGTGCAGAATGA-------ATTCTCGTAAC

SARS_CORONAVIRUS                      TgttCAG-ACAAtgAcaTgaAaT---CTTTAAcgTtcCATAtCAA------AgCAATGtT
Severe_acute_respiratory_syndrom      TAcAtAGCACAAGTAGaTgTAGTTAACTTTAATCTCACATAGCAATCTTTAATCAgTG-T
SARS_coronavirus_civet007             TAAACAGCACAAGTAGGTTTAGTTAACTTTAATCTCACATAGCAATCT------------
SARS_coronavirus_GZ50                 TAAACAGCACAAGTAGGTTTAGTTAACTTTAATCTCACATAGCAATCTTTAATCAATG-T
SARS_coronavirus_Taiwan_TC1           TAAACAGCACAAGTAGGTTTAGTTAACTTTAATCTCACATAGCAATCTTTAATCAATG-T
Bat_coronavirus_(BtCoV/273/2005)      TAAACAGCACAAGTAGGTTTAGTTAACTTTAATtTCACATAGCAATCTTTAATCAATG-T
BtRf-BetaCoV/HeB2013                  TAAACAGCACAAGTAGGTTTAGTTAACTTTAATtTCACATAGCAATCTTTAATaAATG-T

SARS_CORONAVIRUS                      GTgACtTT------------------ttgCtACcTgcgCAttaAtatgACG---------
Severe_acute_respiratory_syndrom      GTAACATTAGGGAGGACTTGAAAGAGCCACCACATTTTCACCGAGGCCACGCGGAGTACG
SARS_coronavirus_civet007             ------------------------------------------------------------
SARS_coronavirus_GZ50                 GTAACATTAGGGAGGACTTGAAAGAGCCACCACATTTTCAtCGAGGCCACGCGGAGTACG
SARS_coronavirus_Taiwan_TC1           GTAACATTAGGGAGGACTTGAAAGAGCCACCACATTTTCAtCGAGGCCACGCGGAGTACG
Bat_coronavirus_(BtCoV/273/2005)      GTAAtgTTAGGGAGGACTTGAAAGAGCCACCACATTTTCACCGAGGCCACGCGGAGTACG
BtRf-BetaCoV/HeB2013                  GTAAtgTTAGGGAGGACTTGAAAGAGCCACCACATTTTCACCGAGGCCACGCGGAGTACG

SARS_CORONAVIRUS                      ------------------------------------------------------------
Severe_acute_respiratory_syndrom      ATCGAGtGTACAGTGAAcAATGCTAGGGAGAGCTGCCTATATGGAAGAGCCCTAATGTGT
SARS_coronavirus_civet007             ------------------------------------------------------------
SARS_coronavirus_GZ50                 ATCGAGGGTACAGTGAATAATGCTAGGGAGAGCTGCCTATATGGAAGAGCCCTAATGTGT
SARS_coronavirus_Taiwan_TC1           ATCGAGGGTACAGTGAATAATGCTAGGGAGAGCT--------------------------
Bat_coronavirus_(BtCoV/273/2005)      ATCGAGGGTACAGTGAATAATGCTAGGGAGAGCTGCCTATATGGAAGAGCCCTAATGTGT
BtRf-BetaCoV/HeB2013                  ATCGAGGGTACAGTGAATAATGCTAGGGAGAGCTGCCTATATGGAAGAGCCCTAATGTGT

SARS_CORONAVIRUS                      ------------------------------------------------------------
Severe_acute_respiratory_syndrom      AAAATTAATTTTAGTAGTGCTATCCCCATGTGATTTTAATAGCTTCTTAGGAGAATGACA
SARS_coronavirus_civet007             ------------------------------------------------------------
SARS_coronavirus_GZ50                 AAAATTAATTTTAGTAGTGCTATCCCCATGTGATTTTAATAGCTTCTTAGGAGAATcACA
SARS_coronavirus_Taiwan_TC1           ------------------------------------------------------------
Bat_coronavirus_(BtCoV/273/2005)      AAAATTAATTTTAGTAGTGCTATCCCCATGTGATTTTAATAGCTTCTTAGGAGAATGACA
BtRf-BetaCoV/HeB2013                  AAAATTAATTTTAGTAGTGCTATCCCCATGTGATTTTAATAGCTTCTTAGGAGAATGACA

SARS_CORONAVIRUS                      --------------------------------
Severe_acute_respiratory_syndrom      AAAAAAAAAAAaaaaaaaaaaaaaaaaaaaaa
SARS_coronavirus_civet007             --------------------------------
SARS_coronavirus_GZ50                 AAAAAAA-------------------------
SARS_coronavirus_Taiwan_TC1           --------------------------------
Bat_coronavirus_(BtCoV/273/2005)      AAAAAAAAAAA---------------------
BtRf-BetaCoV/HeB2013                  AAAAAA--------------------------